Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D07
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 56457815
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1765025 characters in sequence are not A, C, G, or T
File 65 of 189
Found at i:18140524 original size:172 final size:172
Alignment explanation
Indices: 18139983--18140673 Score: 963
Period size: 172 Copynumber: 4.0 Consensus size: 172
18139973 TGTAGTGGAA
18139983 CAGGTTAAAGCCGATAATCCTATCTTCCTGAAGTTGCAGTGGAGTGGATTAAAACCTTGGATCTT
1 CAGGTTAAAGCCGATAATCCTATCTTCCTGAAGTTGCAGTGGAGTGGATTAAAACCTTGGATCTT
* * *
18140048 ATCTCTCTGAAGTTGCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGTA
66 ATCTCTCTGAAGTTGCAGAGAGCAGATCGCATCTAATCTTATCTCCCTAAAGTTGCAGTGGAGCA
*
18140113 GACTAAGAAAGCAAGTCTTATCCTCCTAAAGTTACAGAGAGG
131 GACTAAGTAAGCAAGTCTTATCCTCCTAAAGTTACAGAGAGG
* * * * * *
18140155 CAGACTGAAGATGGC-A-AATCTTATC-TCCTTGAAGTTGCAGTGGAGTGGATTAAAACCATGAA
1 CAG-GTTAA-A-GCCGATAATCCTATCTTCC-TGAAGTTGCAGTGGAGTGGATTAAAACCTTGGA
*
18140217 TCTTATCT-T-TGAAGTTGCAGAGAGCAGATCGCATC-AAGTCTTATC-CTCCTAAAGTTACAG-
62 TCTTATCTCTCTGAAGTTGCAGAGAGCAGATCGCATCTAA-TCTTATCTC-CCTAAAGTTGCAGT
* * * * * *
18140277 AGAGGCAGACTGAAG-ATGGCAAATCTTAT-CTCCTTGAAGTTGCAGTG-GAG
125 GGA-GCAGACT-AAGTA-AGCAAGTCTTATCCTCC-TAAAGTTACAGAGAG-G
*
18140327 CAGGTTAAAGCCGATAATCCTATCTTCCTGAAGTTGTAGTGGAGTGGATTAAAACCTTGGATCTT
1 CAGGTTAAAGCCGATAATCCTATCTTCCTGAAGTTGCAGTGGAGTGGATTAAAACCTTGGATCTT
*
18140392 ATCTCTCTGAAGTTGCAGAGAGCAGATCGCATCTAATCTTATCTCCCTGAAGTTGCAGTGGAGCA
66 ATCTCTCTGAAGTTGCAGAGAGCAGATCGCATCTAATCTTATCTCCCTAAAGTTGCAGTGGAGCA
*
18140457 GACTAAGTAAGCAAGTCTTATCCTCCTGAAGTTACAGAGAGG
131 GACTAAGTAAGCAAGTCTTATCCTCCTAAAGTTACAGAGAGG
* **
18140499 CAGGTTAAAGTCGATAATCCTATCTTCCCAAAGTTGCAGTGGAGTGGATTAAAACCTTGGATCTT
1 CAGGTTAAAGCCGATAATCCTATCTTCCTGAAGTTGCAGTGGAGTGGATTAAAACCTTGGATCTT
* *
18140564 ATCTCTCTGAAGTTACAGAGAGCAGATCGCATCTAGTCTTATCTCCCTAAAGTTGCAGTGGAGCA
66 ATCTCTCTGAAGTTGCAGAGAGCAGATCGCATCTAATCTTATCTCCCTAAAGTTGCAGTGGAGCA
* *
18140629 GACTAAGTAAGCAAGTCTTATCCTCCTAAAGTTGCAGTGAGG
131 GACTAAGTAAGCAAGTCTTATCCTCCTAAAGTTACAGAGAGG
18140671 CAG
1 CAG
18140674 ACTGAAGATG
Statistics
Matches: 457, Mismatches: 40, Indels: 44
0.84 0.07 0.08
Matches are distributed among these distances:
169 2 0.00
170 6 0.01
171 105 0.23
172 228 0.50
173 107 0.23
174 7 0.02
175 2 0.00
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.28
Consensus pattern (172 bp):
CAGGTTAAAGCCGATAATCCTATCTTCCTGAAGTTGCAGTGGAGTGGATTAAAACCTTGGATCTT
ATCTCTCTGAAGTTGCAGAGAGCAGATCGCATCTAATCTTATCTCCCTAAAGTTGCAGTGGAGCA
GACTAAGTAAGCAAGTCTTATCCTCCTAAAGTTACAGAGAGG
Found at i:18140708 original size:45 final size:44
Alignment explanation
Indices: 18140600--18140718 Score: 145
Period size: 45 Copynumber: 2.7 Consensus size: 44
18140590 TCGCATCTAG
* *
18140600 TCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTAAGTAAGCAAG
1 TCTTATCTCTCTAAAGTTGCAGTGGAGCAGACTAAGTAAGCAAA
*
18140644 TCTTATC-CTCCTAAAGTTGCAGT-GAGGCAGACTGAAG-ATGGCAAA
1 TCTTATCTCT-CTAAAGTTGCAGTGGA-GCAGACT-AAGTA-AGCAAA
*
18140689 TCTTATCTCTCTGAAGTTGCAGTGGAGCAG
1 TCTTATCTCTCTAAAGTTGCAGTGGAGCAG
18140719 GTTAAAGCCA
Statistics
Matches: 65, Mismatches: 4, Indels: 11
0.81 0.05 0.14
Matches are distributed among these distances:
43 3 0.05
44 28 0.43
45 30 0.46
46 4 0.06
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.27
Consensus pattern (44 bp):
TCTTATCTCTCTAAAGTTGCAGTGGAGCAGACTAAGTAAGCAAA
Found at i:18140827 original size:173 final size:174
Alignment explanation
Indices: 18140641--18141010 Score: 577
Period size: 173 Copynumber: 2.1 Consensus size: 174
18140631 CTAAGTAAGC
* *
18140641 AAGTCTTATCCTCCTAAAGTTGCAGTGAGGCAGACTGAAGATGGCAAATCTTATCTCTCTGAAGT
1 AAGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGATGGCAAATCTTATCTCCCTGAAGT
* * * *
18140706 TGCAGTGGAGCAGGTTAAAGCCAATAATCCTATCT-TCTTGAAGTTGCAGTGGAGTGGATTAAAA
66 AGCAGTGGAGCAGGTTAAAGCCAATAATCCTATCTCTC-TAAAGTTACAGTGGAGCGGATTAAAA
* *
18140770 TCTTGGATCTTATCTTTCTGAAGTTACAGAGAACAGATCGCAT-T
130 CCTTGGATCTTATCTATCTGAAGTTACAGAGAACAGATCGCATCT
*
18140814 AAGTCTTATCCTCCTGAAGTTGTAGTGAGGCAGACTGAAGATGGCAAATCTTATCTCCCTGAAGT
1 AAGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGATGGCAAATCTTATCTCCCTGAAGT
* *
18140879 AGTAGTGGAGCAGGTTAAAGCCGATAATCCTATCTCTCTAAAGTTACAGTGGAGCGGATTAAAAC
66 AGCAGTGGAGCAGGTTAAAGCCAATAATCCTATCTCTCTAAAGTTACAGTGGAGCGGATTAAAAC
* *
18140944 CTTGGATCTTATCTATCTGAAGTTGCAGAGAGCAGATCGCATCT
131 CTTGGATCTTATCTATCTGAAGTTACAGAGAACAGATCGCATCT
18140988 -AGTCTTAT-CTCCCTGAAGTTGCA
1 AAGTCTTATCCT-CCTGAAGTTGCA
18141011 ATGGAGCGGA
Statistics
Matches: 180, Mismatches: 14, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
172 2 0.01
173 175 0.97
174 3 0.02
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.30
Consensus pattern (174 bp):
AAGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGATGGCAAATCTTATCTCCCTGAAGT
AGCAGTGGAGCAGGTTAAAGCCAATAATCCTATCTCTCTAAAGTTACAGTGGAGCGGATTAAAAC
CTTGGATCTTATCTATCTGAAGTTACAGAGAACAGATCGCATCT
Found at i:18140849 original size:217 final size:216
Alignment explanation
Indices: 18140428--18140891 Score: 586
Period size: 217 Copynumber: 2.1 Consensus size: 216
18140418 TCGCATCTAA
* *
18140428 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGTCTTATCCTCCTGAAGTTACA
1 TCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTAAGTAAGCAAATCTTATCCTCCTGAAGTTACA
* *
18140493 GAGAGGCAGGTTAAAGTCGATAATCCTATCTTCCCAAAGTTGCAGTGGAGTGGATTAAAACCTTG
66 GAGAGGCAGGTTAAAGCCAATAATCCTATCTTCCCAAAGTTGCAGTGGAGTGGATTAAAACCTTG
*
18140558 GATCTTATCTCTCTGAAGTTACAGAGAGCAGATCGCATCTAGTCTTATCTCCCTAAAGTTGCAGT
131 GATCTTATCTCTCTGAAGTTACAGAGAACAGATCGCATCTAGTCTTATCTCCCTAAAGTTGCAGT
18140623 GGAGCAGACTAAGTAAGCAAG
196 GGAGCAGACTAAGTAAGCAAG
*
18140644 TCTTATC-CTCCTAAAGTTGCAGT-GAGGCAGACTGAAG-ATGGCAAATCTTAT-CTCTCTGAAG
1 TCTTATCTC-CCTAAAGTTGCAGTGGA-GCAGACT-AAGTA-AGCAAATCTTATCCTC-CTGAAG
* * ***
18140705 TTGCAGTG-GAGCAGGTTAAAGCCAATAATCCTATCTTCTTGAAGTTGCAGTGGAGTGGATTAAA
61 TTACAGAGAG-GCAGGTTAAAGCCAATAATCCTATCTTCCCAAAGTTGCAGTGGAGTGGATTAAA
* * *
18140769 ATCTTGGATCTTATCTTTCTGAAGTTACAGAGAACAGATCGCAT-TAAGTCTTATC-CTCCTGAA
125 ACCTTGGATCTTATCTCTCTGAAGTTACAGAGAACAGATCGCATCT-AGTCTTATCTC-CCTAAA
* * *
18140832 GTTGTAGT-GAGGCAGACTGAAG-ATGGCAAA
188 GTTGCAGTGGA-GCAGACT-AAGTA-AGCAAG
* * *
18140862 TCTTATCTCCCTGAAGTAGTAGTGGAGCAG
1 TCTTATCTCCCTAAAGTTGCAGTGGAGCAG
18140892 GTTAAAGCCG
Statistics
Matches: 215, Mismatches: 20, Indels: 24
0.83 0.08 0.09
Matches are distributed among these distances:
215 3 0.01
216 36 0.17
217 144 0.67
218 29 0.13
219 3 0.01
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.29
Consensus pattern (216 bp):
TCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTAAGTAAGCAAATCTTATCCTCCTGAAGTTACA
GAGAGGCAGGTTAAAGCCAATAATCCTATCTTCCCAAAGTTGCAGTGGAGTGGATTAAAACCTTG
GATCTTATCTCTCTGAAGTTACAGAGAACAGATCGCATCTAGTCTTATCTCCCTAAAGTTGCAGT
GGAGCAGACTAAGTAAGCAAG
Found at i:18140915 original size:217 final size:217
Alignment explanation
Indices: 18140485--18140941 Score: 540
Period size: 217 Copynumber: 2.1 Consensus size: 217
18140475 TATCCTCCTG
* * *
18140485 AAGTTACAG-AGAGGCAGGTTAAAGTCGATAATCCTATCTTCCCAAAGTTGCAGTGGAGTGGATT
1 AAGTTACAGTGGA-GCAGGTTAAAGCCAATAATCCTATCTTCCCAAAGTTGCAGTGGAGTGGATT
*
18140549 AAAACCTTGGATCTTATCTCTCTGAAGTTACAGAGAGCAGATCGCATCTAGTCTTATCTCCCTAA
65 AAAACCTTGGATCTTATCTCTCTGAAGTTACAGAGAACAGATCGCATCTAGTCTTATCTCCCTAA
* *
18140614 AGTTGCAGTGGAGCAGACTAAGTAAGCAAGTCTTATCCTCCTAAAGTTGCAGTGAGGCAGACTGA
130 AGTTGCAGTGGAGCAGACTAAGTAAGCAAATCTTATCCTCCTAAAGTAGCAGTGAGGCAGACTGA
* * *
18140679 AGATGGCAAATCTTATCTCTCTG
195 AGATGCCAAATCCTATCTCTCTA
* ***
18140702 AAGTTGCAGTGGAGCAGGTTAAAGCCAATAATCCTATCTTCTTGAAGTTGCAGTGGAGTGGATTA
1 AAGTTACAGTGGAGCAGGTTAAAGCCAATAATCCTATCTTCCCAAAGTTGCAGTGGAGTGGATTA
* * *
18140767 AAATCTTGGATCTTATCTTTCTGAAGTTACAGAGAACAGATCGCAT-TAAGTCTTATC-CTCCTG
66 AAACCTTGGATCTTATCTCTCTGAAGTTACAGAGAACAGATCGCATCT-AGTCTTATCTC-CCTA
* * * *
18140830 AAGTTGTAGT-GAGGCAGACTGAAG-ATGGCAAATCTTAT-CTCCCTGAAGTAGTAGTG-GAGCA
129 AAGTTGCAGTGGA-GCAGACT-AAGTA-AGCAAATCTTATCCT-CCTAAAGTAGCAGTGAG-GCA
* *
18140891 G-GTTAA-A-GCCGATAATCCTATCTCTCTA
189 GACTGAAGATGCC-A-AATCCTATCTCTCTA
18140919 AAGTTACAGTGGAGC-GGATTAAA
1 AAGTTACAGTGGAGCAGG-TTAAA
18140942 ACCTTGGATC
Statistics
Matches: 206, Mismatches: 23, Indels: 22
0.82 0.09 0.09
Matches are distributed among these distances:
215 2 0.01
216 8 0.04
217 165 0.80
218 31 0.15
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.28
Consensus pattern (217 bp):
AAGTTACAGTGGAGCAGGTTAAAGCCAATAATCCTATCTTCCCAAAGTTGCAGTGGAGTGGATTA
AAACCTTGGATCTTATCTCTCTGAAGTTACAGAGAACAGATCGCATCTAGTCTTATCTCCCTAAA
GTTGCAGTGGAGCAGACTAAGTAAGCAAATCTTATCCTCCTAAAGTAGCAGTGAGGCAGACTGAA
GATGCCAAATCCTATCTCTCTA
Found at i:18141004 original size:40 final size:40
Alignment explanation
Indices: 18140950--18141104 Score: 132
Period size: 40 Copynumber: 3.6 Consensus size: 40
18140940 AAACCTTGGA
** *
18140950 TCTTATCTATCTGAAGTTGCAGAGAGCAGATCGCATCTAG
1 TCTTATCTCCCTGAAGTTGCAGAGAGCAGATCACATCTAG
* *
18140990 TCTTATCTCCCTGAAGTTGCA-ATGGAGCGGATTAGAACCACAAATCTTGG
1 TCTTATCTCCCTGAAGTTGCAGA--GAGC-----AG-ATCAC--ATC-TAG
*
18141040 ATCTTATCTCTCTGAAGTTGCAGAGAGCAGATCACATCTAG
1 -TCTTATCTCCCTGAAGTTGCAGAGAGCAGATCACATCTAG
*
18141081 TCTTATCTCCTTGAAGTTGCAGAG
1 TCTTATCTCCCTGAAGTTGCAGAG
18141105 GAGTAGATTG
Statistics
Matches: 92, Mismatches: 10, Indels: 26
0.72 0.08 0.20
Matches are distributed among these distances:
39 1 0.01
40 41 0.45
41 6 0.07
42 3 0.03
44 4 0.04
45 2 0.02
46 2 0.02
47 3 0.03
49 3 0.03
50 6 0.07
51 20 0.22
52 1 0.01
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.30
Consensus pattern (40 bp):
TCTTATCTCCCTGAAGTTGCAGAGAGCAGATCACATCTAG
Found at i:18141016 original size:84 final size:87
Alignment explanation
Indices: 18140909--18141101 Score: 266
Period size: 91 Copynumber: 2.2 Consensus size: 87
18140899 CCGATAATCC
* * * *
18140909 TATCTCTCTAAAGTTACAGTGGAGCGGATTA-AA-AC-CTTGGATCTTATCTATCTGAAGTTGCA
1 TATCTCCCTGAAGTTGCAATGGAGCGGATTAGAACACACTTGGATCTTATCTATCTGAAGTTGCA
*
18140971 GAGAGCAGATCGCATCTAGTCT
66 GAGAGCAGATCACATCTAGTCT
*
18140993 TATCTCCCTGAAGTTGCAATGGAGCGGATTAGAACCACAAATCTTGGATCTTATCTCTCTGAAGT
1 TATCTCCCTGAAGTTGCAATGGAGCGGATTAGAA-CAC--A-CTTGGATCTTATCTATCTGAAGT
18141058 TGCAGAGAGCAGATCACATCTAGTCT
62 TGCAGAGAGCAGATCACATCTAGTCT
*
18141084 TATCTCCTTGAAGTTGCA
1 TATCTCCCTGAAGTTGCA
18141102 GAGGAGTAGA
Statistics
Matches: 95, Mismatches: 7, Indels: 7
0.87 0.06 0.06
Matches are distributed among these distances:
84 27 0.28
85 2 0.02
87 2 0.02
91 64 0.67
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.31
Consensus pattern (87 bp):
TATCTCCCTGAAGTTGCAATGGAGCGGATTAGAACACACTTGGATCTTATCTATCTGAAGTTGCA
GAGAGCAGATCACATCTAGTCT
Found at i:18143038 original size:13 final size:12
Alignment explanation
Indices: 18143014--18143052 Score: 53
Period size: 13 Copynumber: 3.2 Consensus size: 12
18143004 TCATGGATTA
18143014 TTGTTT-TTTAT
1 TTGTTTATTTAT
18143025 TTCGTTTATTTAT
1 TT-GTTTATTTAT
18143038 TTGTTTATATTAT
1 TTGTTTAT-TTAT
18143051 TT
1 TT
18143053 TTATGCCATT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
11 2 0.08
12 10 0.40
13 13 0.52
ACGTcount: A:0.15, C:0.03, G:0.08, T:0.74
Consensus pattern (12 bp):
TTGTTTATTTAT
Found at i:18143080 original size:15 final size:15
Alignment explanation
Indices: 18143060--18143092 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
18143050 TTTTTATGCC
18143060 ATTGATGTATTTATT
1 ATTGATGTATTTATT
18143075 ATTGATGTATTTATT
1 ATTGATGTATTTATT
18143090 ATT
1 ATT
18143093 TTAGCATTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.27, C:0.00, G:0.12, T:0.61
Consensus pattern (15 bp):
ATTGATGTATTTATT
Found at i:18156796 original size:23 final size:24
Alignment explanation
Indices: 18156770--18156814 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
18156760 CATTTAACTA
18156770 ATTTTTAAAAA-AATTAAAAATTT
1 ATTTTTAAAAATAATTAAAAATTT
*
18156793 ATTTTTAAAAATCATTAAAAAT
1 ATTTTTAAAAATAATTAAAAAT
18156815 CATAAAAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 11 0.55
24 9 0.45
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (24 bp):
ATTTTTAAAAATAATTAAAAATTT
Found at i:18157166 original size:15 final size:15
Alignment explanation
Indices: 18157146--18157253 Score: 87
Period size: 15 Copynumber: 7.2 Consensus size: 15
18157136 TTTATGGAAA
18157146 ATCAAAGATATGGGT
1 ATCAAAGATATGGGT
* **
18157161 ATCAAATA-ATGGAA
1 ATCAAAGATATGGGT
18157175 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
* **
18157191 ATCAAATAT-TGGAA
1 ATCAAAGATATGGGT
18157205 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
* **
18157221 ATCAAATAT-TGGAA
1 ATCAAAGATATGGGT
18157235 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
18157251 ATC
1 ATC
18157254 GAGATATTGG
Statistics
Matches: 69, Mismatches: 18, Indels: 12
0.70 0.18 0.12
Matches are distributed among these distances:
14 13 0.19
15 43 0.62
16 13 0.19
ACGTcount: A:0.44, C:0.07, G:0.23, T:0.26
Consensus pattern (15 bp):
ATCAAAGATATGGGT
Found at i:18157175 original size:30 final size:30
Alignment explanation
Indices: 18157139--18157253 Score: 203
Period size: 30 Copynumber: 3.8 Consensus size: 30
18157129 ATCCATATTT
*
18157139 ATGGAAAATCAAAGATATGGGTATCAAATA
1 ATGGAAAGTCAAAGATATGGGTATCAAATA
18157169 ATGGAAAGTCAAAGATATGGGTATCAAATA
1 ATGGAAAGTCAAAGATATGGGTATCAAATA
*
18157199 TTGGAAAGTCAAAGATATGGGTATCAAATA
1 ATGGAAAGTCAAAGATATGGGTATCAAATA
*
18157229 TTGGAAAGTCAAAGATATGGGTATC
1 ATGGAAAGTCAAAGATATGGGTATC
18157254 GAGATATTGG
Statistics
Matches: 83, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
30 83 1.00
ACGTcount: A:0.44, C:0.07, G:0.23, T:0.25
Consensus pattern (30 bp):
ATGGAAAGTCAAAGATATGGGTATCAAATA
Found at i:18161859 original size:15 final size:15
Alignment explanation
Indices: 18161839--18161946 Score: 87
Period size: 15 Copynumber: 7.2 Consensus size: 15
18161829 TTTATGGAAA
18161839 ATCAAAGATATGGGT
1 ATCAAAGATATGGGT
* **
18161854 ATCAAATA-ATGGAA
1 ATCAAAGATATGGGT
18161868 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
* **
18161884 ATCAAATAT-TGGAA
1 ATCAAAGATATGGGT
18161898 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
* **
18161914 ATCAAATAT-TGGAA
1 ATCAAAGATATGGGT
18161928 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
18161944 ATC
1 ATC
18161947 GAGATATTGG
Statistics
Matches: 69, Mismatches: 18, Indels: 12
0.70 0.18 0.12
Matches are distributed among these distances:
14 13 0.19
15 43 0.62
16 13 0.19
ACGTcount: A:0.44, C:0.07, G:0.23, T:0.26
Consensus pattern (15 bp):
ATCAAAGATATGGGT
Found at i:18161868 original size:30 final size:30
Alignment explanation
Indices: 18161832--18161946 Score: 203
Period size: 30 Copynumber: 3.8 Consensus size: 30
18161822 ATCCATATTT
*
18161832 ATGGAAAATCAAAGATATGGGTATCAAATA
1 ATGGAAAGTCAAAGATATGGGTATCAAATA
18161862 ATGGAAAGTCAAAGATATGGGTATCAAATA
1 ATGGAAAGTCAAAGATATGGGTATCAAATA
*
18161892 TTGGAAAGTCAAAGATATGGGTATCAAATA
1 ATGGAAAGTCAAAGATATGGGTATCAAATA
*
18161922 TTGGAAAGTCAAAGATATGGGTATC
1 ATGGAAAGTCAAAGATATGGGTATC
18161947 GAGATATTGG
Statistics
Matches: 83, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
30 83 1.00
ACGTcount: A:0.44, C:0.07, G:0.23, T:0.25
Consensus pattern (30 bp):
ATGGAAAGTCAAAGATATGGGTATCAAATA
Found at i:18184242 original size:13 final size:12
Alignment explanation
Indices: 18184220--18184253 Score: 50
Period size: 13 Copynumber: 2.8 Consensus size: 12
18184210 TCATGAGAAA
18184220 TTTCTTTATCCT
1 TTTCTTTATCCT
18184232 TTTCTTTTATCCT
1 TTTC-TTTATCCT
*
18184245 TTTATTTAT
1 TTTCTTTAT
18184254 AGTTCGTTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
12 9 0.45
13 11 0.55
ACGTcount: A:0.12, C:0.18, G:0.00, T:0.71
Consensus pattern (12 bp):
TTTCTTTATCCT
Found at i:18192995 original size:96 final size:94
Alignment explanation
Indices: 18192829--18193023 Score: 354
Period size: 96 Copynumber: 2.1 Consensus size: 94
18192819 GCCACCCTTC
18192829 TCTCTCTCTCTCTTATAGTTTAAGTAGGAGTTGTATTTTCTATTAAATTATTATTATTTAATCAG
1 TCTCTCTCTCTCTTATAGTTTAAGTAGGAGTTGTATTTTCTATTAAATTATTATTATTTAATCAG
*
18192894 GACTTATTCAAGCATAACTCTTGTACTATAT
66 AACTTATTCAAGCATAACTCTTGTACT-T-T
*
18192925 TCTCTCTTTCTCTTATAGTTTAAGTAGGAGTTGTATTTTCTATTAAATTATTATTATTTAATCAG
1 TCTCTCTCTCTCTTATAGTTTAAGTAGGAGTTGTATTTTCTATTAAATTATTATTATTTAATCAG
18192990 AACTTATTCAAGCATAACTCTTGTACTTT
66 AACTTATTCAAGCATAACTCTTGTACTTT
18193019 TCTCT
1 TCTCT
18193024 ATAAGTAGAG
Statistics
Matches: 97, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
94 6 0.06
95 1 0.01
96 90 0.93
ACGTcount: A:0.27, C:0.15, G:0.10, T:0.48
Consensus pattern (94 bp):
TCTCTCTCTCTCTTATAGTTTAAGTAGGAGTTGTATTTTCTATTAAATTATTATTATTTAATCAG
AACTTATTCAAGCATAACTCTTGTACTTT
Found at i:18200403 original size:22 final size:22
Alignment explanation
Indices: 18200375--18200419 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
18200365 AAAAAAAAAT
18200375 TATTTCTTATAATATATCTTAC
1 TATTTCTTATAATATATCTTAC
18200397 TATTTCTTATAATATATCTTAC
1 TATTTCTTATAATATATCTTAC
18200419 T
1 T
18200420 TCAATAAATG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.31, C:0.13, G:0.00, T:0.56
Consensus pattern (22 bp):
TATTTCTTATAATATATCTTAC
Found at i:18203885 original size:18 final size:19
Alignment explanation
Indices: 18203862--18203903 Score: 77
Period size: 18 Copynumber: 2.3 Consensus size: 19
18203852 ATTAATTTCG
18203862 ATCAATCAAAATTAAATT-
1 ATCAATCAAAATTAAATTA
18203880 ATCAATCAAAATTAAATTA
1 ATCAATCAAAATTAAATTA
18203899 ATCAA
1 ATCAA
18203904 ATTAATTAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
18 18 0.78
19 5 0.22
ACGTcount: A:0.57, C:0.12, G:0.00, T:0.31
Consensus pattern (19 bp):
ATCAATCAAAATTAAATTA
Found at i:18204365 original size:14 final size:16
Alignment explanation
Indices: 18204345--18204386 Score: 61
Period size: 14 Copynumber: 2.7 Consensus size: 16
18204335 AATATTCCAA
18204345 AAATAAATTTATT-TT
1 AAATAAATTTATTATT
18204360 -AATAAATTTATTATT
1 AAATAAATTTATTATT
18204375 AAATTAAATTTA
1 AAA-TAAATTTA
18204387 ATACTTATCT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
14 12 0.50
15 2 0.08
16 2 0.08
17 8 0.33
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
AAATAAATTTATTATT
Found at i:18204474 original size:53 final size:55
Alignment explanation
Indices: 18204373--18204478 Score: 155
Period size: 53 Copynumber: 2.0 Consensus size: 55
18204363 AAATTTATTA
* *
18204373 TTAAATTAAATTTAATACTTATCTTATAAATAAATATTCTATTAATTTAATATAT
1 TTAAATTAAATCTAATACTTATCTTATAAATAAATATTATATTAATTTAATATAT
*
18204428 TTAATATTAAATCTAATACTTAT-TT-T-GATAAATATTATATTAATTTAATAT
1 TTAA-ATTAAATCTAATACTTATCTTATAAATAAATATTATATTAATTTAATAT
18204479 TAAAGTGATT
Statistics
Matches: 47, Mismatches: 3, Indels: 4
0.87 0.06 0.07
Matches are distributed among these distances:
53 23 0.49
54 1 0.02
55 6 0.13
56 17 0.36
ACGTcount: A:0.44, C:0.05, G:0.01, T:0.50
Consensus pattern (55 bp):
TTAAATTAAATCTAATACTTATCTTATAAATAAATATTATATTAATTTAATATAT
Found at i:18210438 original size:24 final size:24
Alignment explanation
Indices: 18210411--18210462 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
18210401 TTAGTAAGTC
*
18210411 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
18210435 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
18210459 AAAT
1 AAAT
18210463 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:18215636 original size:15 final size:15
Alignment explanation
Indices: 18215613--18215651 Score: 69
Period size: 15 Copynumber: 2.6 Consensus size: 15
18215603 AATGATTTTG
*
18215613 ATTATATGTGTATAA
1 ATTAAATGTGTATAA
18215628 ATTAAATGTGTATAA
1 ATTAAATGTGTATAA
18215643 ATTAAATGT
1 ATTAAATGT
18215652 ATTGCCAATC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.44, C:0.00, G:0.13, T:0.44
Consensus pattern (15 bp):
ATTAAATGTGTATAA
Found at i:18218716 original size:3 final size:3
Alignment explanation
Indices: 18218708--18218733 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
18218698 CTTGTTTAGA
18218708 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
18218734 AATCCCCTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:18220125 original size:34 final size:34
Alignment explanation
Indices: 18220052--18220133 Score: 110
Period size: 34 Copynumber: 2.4 Consensus size: 34
18220042 GTAGGATTTG
*
18220052 TTCTGATATGATATATGTTTCTAGAAATATTACA
1 TTCTGATATGATATATGTTTCTAGAAATATGACA
* * * * *
18220086 ATCTGATTTGATATATGTTTCTGGTAATGTGACA
1 TTCTGATATGATATATGTTTCTAGAAATATGACA
18220120 TTCTGATATGATAT
1 TTCTGATATGATAT
18220134 TTGTATATTT
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
34 40 1.00
ACGTcount: A:0.30, C:0.09, G:0.16, T:0.45
Consensus pattern (34 bp):
TTCTGATATGATATATGTTTCTAGAAATATGACA
Found at i:18222779 original size:25 final size:25
Alignment explanation
Indices: 18222729--18222902 Score: 101
Period size: 25 Copynumber: 7.0 Consensus size: 25
18222719 TCTTTCGAGT
*
18222729 CATATAATGGGAAGCTCATGTA-AGC
1 CATATAACGGGAAGCTCATG-AGAGC
*
18222754 CATATAACGGGAAGCTCATAAGAGC
1 CATATAACGGGAAGCTCATGAGAGC
* * *
18222779 CGTAATTA--GGAAGCTCATGCGAGC
1 CAT-ATAACGGGAAGCTCATGAGAGC
*
18222803 CA-ATATCGGGAAGCTCCA-GAGAGC
1 CATATAACGGGAAGCT-CATGAGAGC
**
18222827 CAT-TAATTAGGAAGCTCATGAGAGC
1 CATATAA-CGGGAAGCTCATGAGAGC
* * * *
18222852 CA-ACTATCGAGAAACTCGTGAGAGC
1 CATA-TAACGGGAAGCTCATGAGAGC
* * ** *
18222877 TAAATAACTAGAAGCTCAAGAGAGC
1 CATATAACGGGAAGCTCATGAGAGC
18222902 C
1 C
18222903 GCATGTCAGG
Statistics
Matches: 112, Mismatches: 26, Indels: 22
0.70 0.16 0.14
Matches are distributed among these distances:
22 2 0.02
24 34 0.30
25 70 0.62
26 6 0.05
ACGTcount: A:0.37, C:0.20, G:0.25, T:0.18
Consensus pattern (25 bp):
CATATAACGGGAAGCTCATGAGAGC
Found at i:18222795 original size:24 final size:23
Alignment explanation
Indices: 18222763--18222852 Score: 85
Period size: 24 Copynumber: 3.7 Consensus size: 23
18222753 CCATATAACG
*
18222763 GGAAGCTCATAAGAGCCGTAATTA
1 GGAAGCTCATGAGAGCC-TAATTA
* *
18222787 GGAAGCTCATGCGAGCC-AATATCG
1 GGAAGCTCATGAGAGCCTAAT-T-A
18222811 GGAAGCTCCA-GAGAGCCATTAATTA
1 GGAAGCT-CATGAGAGCC--TAATTA
18222836 GGAAGCTCATGAGAGCC
1 GGAAGCTCATGAGAGCC
18222853 AACTATCGAG
Statistics
Matches: 54, Mismatches: 5, Indels: 13
0.75 0.07 0.18
Matches are distributed among these distances:
22 3 0.06
23 1 0.02
24 30 0.56
25 16 0.30
26 1 0.02
27 3 0.06
ACGTcount: A:0.33, C:0.21, G:0.28, T:0.18
Consensus pattern (23 bp):
GGAAGCTCATGAGAGCCTAATTA
Found at i:18222804 original size:49 final size:49
Alignment explanation
Indices: 18222738--18222854 Score: 150
Period size: 49 Copynumber: 2.4 Consensus size: 49
18222728 TCATATAATG
18222738 GGAAGCTCATGTA-AGCCATATAACGGGAAGCT-CATAAGAGCC-GTAATTA
1 GGAAGCTCATG-AGAGCCA-ATAACGGGAAGCTCCA-AAGAGCCAGTAATTA
* * * *
18222787 GGAAGCTCATGCGAGCCAATATCGGGAAGCTCCAGAGAGCCATTAATTA
1 GGAAGCTCATGAGAGCCAATAACGGGAAGCTCCAAAGAGCCAGTAATTA
18222836 GGAAGCTCATGAGAGCCAA
1 GGAAGCTCATGAGAGCCAA
18222855 CTATCGAGAA
Statistics
Matches: 60, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
48 18 0.30
49 42 0.70
ACGTcount: A:0.35, C:0.21, G:0.26, T:0.18
Consensus pattern (49 bp):
GGAAGCTCATGAGAGCCAATAACGGGAAGCTCCAAAGAGCCAGTAATTA
Found at i:18222891 original size:50 final size:49
Alignment explanation
Indices: 18222785--18222902 Score: 130
Period size: 50 Copynumber: 2.4 Consensus size: 49
18222775 GAGCCGTAAT
* * * * * *
18222785 TAGGAAGCTCATGCGAGCCAATATCGGGAAGCTCCAGAGAGCCATTAAT
1 TAGGAAGCTCATGAGAGCCAATATCGAGAAACTCCAGAGAGCAAATAAC
**
18222834 TAGGAAGCTCATGAGAGCCAACTATCGAGAAACTCGTGAGAGCTAAATAAC
1 TAGGAAGCTCATGAGAGCCAA-TATCGAGAAACTCCAGAGAGC-AAATAAC
*
18222885 TA-GAAGCTCAAGAGAGCC
1 TAGGAAGCTCATGAGAGCC
18222903 GCATGTCAGG
Statistics
Matches: 58, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
49 20 0.34
50 32 0.55
51 6 0.10
ACGTcount: A:0.36, C:0.21, G:0.25, T:0.17
Consensus pattern (49 bp):
TAGGAAGCTCATGAGAGCCAATATCGAGAAACTCCAGAGAGCAAATAAC
Found at i:18228059 original size:15 final size:15
Alignment explanation
Indices: 18228039--18228075 Score: 74
Period size: 15 Copynumber: 2.5 Consensus size: 15
18228029 AGCATTACTT
18228039 TCAGCTTCATCGGAA
1 TCAGCTTCATCGGAA
18228054 TCAGCTTCATCGGAA
1 TCAGCTTCATCGGAA
18228069 TCAGCTT
1 TCAGCTT
18228076 GGTTAGATGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.24, C:0.27, G:0.19, T:0.30
Consensus pattern (15 bp):
TCAGCTTCATCGGAA
Found at i:18229720 original size:49 final size:50
Alignment explanation
Indices: 18229625--18229764 Score: 153
Period size: 49 Copynumber: 2.8 Consensus size: 50
18229615 CATATAACGA
* **
18229625 GAAGCTCATGTGAGCCATGTAAGGGGAAGCTCATA-AGAGCC-GTAATCAG
1 GAAGCTCATGTGAGCCA-ATATCGGGAAGCTCATAGAGAGCCAGTAATCAG
* *
18229674 GAAGCTTATGTGAGCCAATATCGGGAAGCTC-TAGAGAGCCATTAATCAG
1 GAAGCTCATGTGAGCCAATATCGGGAAGCTCATAGAGAGCCAGTAATCAG
* * * *
18229723 GCAGCTCATGAGAGCTAATTATCGGGAAGCTCGT-GAGAGCCA
1 GAAGCTCATGTGAGCCAA-TATCGGGAAGCTCATAGAGAGCCA
18229765 AATAACGGGA
Statistics
Matches: 78, Mismatches: 9, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
47 2 0.03
48 17 0.22
49 37 0.47
50 21 0.27
51 1 0.01
ACGTcount: A:0.31, C:0.19, G:0.29, T:0.20
Consensus pattern (50 bp):
GAAGCTCATGTGAGCCAATATCGGGAAGCTCATAGAGAGCCAGTAATCAG
Found at i:18229735 original size:25 final size:24
Alignment explanation
Indices: 18229625--18229764 Score: 102
Period size: 25 Copynumber: 5.7 Consensus size: 24
18229615 CATATAACGA
* ***
18229625 GAAGCTCATGTGAGCCATGTAAGGG
1 GAAGCTCATGAGAGCCAT-TATCAG
* * *
18229650 GAAGCTCATAAGAGCCGTAATCAG
1 GAAGCTCATGAGAGCCATTATCAG
* * * *
18229674 GAAGCTTATGTGAGCCAATATCGG
1 GAAGCTCATGAGAGCCATTATCAG
18229698 GAAGCTC-TAGAGAGCCATTAATCAG
1 GAAGCTCAT-GAGAGCCATT-ATCAG
* * *
18229723 GCAGCTCATGAGAGCTAATTATCGG
1 GAAGCTCATGAGAGC-CATTATCAG
*
18229748 GAAGCTCGTGAGAGCCA
1 GAAGCTCATGAGAGCCA
18229765 AATAACGGGA
Statistics
Matches: 87, Mismatches: 24, Indels: 9
0.73 0.20 0.08
Matches are distributed among these distances:
23 1 0.01
24 34 0.39
25 48 0.55
26 4 0.05
ACGTcount: A:0.31, C:0.19, G:0.29, T:0.20
Consensus pattern (24 bp):
GAAGCTCATGAGAGCCATTATCAG
Found at i:18229752 original size:50 final size:50
Alignment explanation
Indices: 18229625--18229812 Score: 145
Period size: 50 Copynumber: 3.8 Consensus size: 50
18229615 CATATAACGA
* * **
18229625 GAAGCTCATGTGAGCCATGTAAGGGGAAGCTCATA-AGAGCC-GTAATCAG
1 GAAGCTCATGAGAGCCA-ATATCGGGAAGCTCATAGAGAGCCAGTAATCAG
* * *
18229674 GAAGCTTATGTGAGCCAATATCGGGAAGCTC-TAGAGAGCCATTAATCAG
1 GAAGCTCATGAGAGCCAATATCGGGAAGCTCATAGAGAGCCAGTAATCAG
* * * * *
18229723 GCAGCTCATGAGAGCTAATTATCGGGAAGCTCGT-GAGAGCCAAATAA-CGG
1 GAAGCTCATGAGAGCCAA-TATCGGGAAGCTCATAGAGAGCC-AGTAATCAG
* * * * *
18229773 GAAGCTCAAGAAAACCATATATCGAGATGCTCATA-AGAGC
1 GAAGCTCATGAGAGCCA-ATATCGGGAAGCTCATAGAGAGC
18229813 TAAATAACGA
Statistics
Matches: 113, Mismatches: 19, Indels: 13
0.78 0.13 0.09
Matches are distributed among these distances:
47 2 0.02
48 17 0.15
49 37 0.33
50 51 0.45
51 6 0.05
ACGTcount: A:0.35, C:0.19, G:0.27, T:0.19
Consensus pattern (50 bp):
GAAGCTCATGAGAGCCAATATCGGGAAGCTCATAGAGAGCCAGTAATCAG
Found at i:18229773 original size:25 final size:23
Alignment explanation
Indices: 18229613--18229779 Score: 84
Period size: 25 Copynumber: 6.8 Consensus size: 23
18229603 GCTATTTTGT
* *
18229613 GCCATATAACGAGAAGCTCATGTGA
1 GCCA-ATAACGGGAAGCTC-TGAGA
* * *
18229638 GCCATGTAAGGGGAAGCTCATAAGA
1 GCCA-ATAACGGGAAGCTC-TGAGA
* * * *
18229663 GCC-GTAATCAGGAAGCTTATGTGA
1 GCCAATAA-CGGGAAGC-TCTGAGA
*
18229687 GCCAATATCGGGAAGCTCTAGAGA
1 GCCAATAACGGGAAGCTCT-GAGA
* * *
18229711 GCCATTAATCAGGCAGCTCATGAGA
1 GCCAATAA-CGGGAAGCTC-TGAGA
* *
18229736 GCTAATTATCGGGAAGCTCGTGAGA
1 GCCAA-TAACGGGAAGCTC-TGAGA
18229761 GCCAAATAACGGGAAGCTC
1 GCC-AATAACGGGAAGCTC
18229780 AAGAAAACCA
Statistics
Matches: 107, Mismatches: 27, Indels: 16
0.71 0.18 0.11
Matches are distributed among these distances:
23 6 0.06
24 28 0.26
25 68 0.64
26 5 0.05
ACGTcount: A:0.33, C:0.20, G:0.28, T:0.19
Consensus pattern (23 bp):
GCCAATAACGGGAAGCTCTGAGA
Found at i:18232366 original size:30 final size:30
Alignment explanation
Indices: 18232332--18232394 Score: 117
Period size: 30 Copynumber: 2.1 Consensus size: 30
18232322 TTATAGAATT
*
18232332 TGTGTTTTATTATTTTAAATTCTTTATGTA
1 TGTGTTTTATTATTTTAAATTCATTATGTA
18232362 TGTGTTTTATTATTTTAAATTCATTATGTA
1 TGTGTTTTATTATTTTAAATTCATTATGTA
18232392 TGT
1 TGT
18232395 TCTTTTAAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.24, C:0.03, G:0.11, T:0.62
Consensus pattern (30 bp):
TGTGTTTTATTATTTTAAATTCATTATGTA
Found at i:18232424 original size:24 final size:23
Alignment explanation
Indices: 18232362--18232479 Score: 96
Period size: 24 Copynumber: 5.0 Consensus size: 23
18232352 TCTTTATGTA
* *
18232362 TGTGTTTTATTATTTTAAATTCAT
1 TGTGTATTGTTATTTTAAATT-AT
* *
18232386 TATGTA-TGTTCTTTTAAATCTAT
1 TGTGTATTGTTATTTTAAAT-TAT
*
18232409 TGTGTATTGTTGTTTTAAAATTAT
1 TGTGTATTGTTATTTT-AAATTAT
* *
18232433 TGTGTATTATTATTTTAAAGTTAC
1 TGTGTATTGTTATTTTAAA-TTAT
* *
18232457 TATGTATTATTA-TTTAAAGTTAT
1 TGTGTATTGTTATTTTAAA-TTAT
18232480 CTCATATTTA
Statistics
Matches: 79, Mismatches: 11, Indels: 9
0.80 0.11 0.09
Matches are distributed among these distances:
23 31 0.39
24 44 0.56
25 4 0.05
ACGTcount: A:0.28, C:0.03, G:0.11, T:0.58
Consensus pattern (23 bp):
TGTGTATTGTTATTTTAAATTAT
Found at i:18232490 original size:24 final size:24
Alignment explanation
Indices: 18232437--18232491 Score: 69
Period size: 24 Copynumber: 2.3 Consensus size: 24
18232427 AATTATTGTG
*
18232437 TATTATTATTTTAAAGTTACTATG
1 TATTATTATTTTAAAGTTACTATA
18232461 TATTATTA-TTTAAAGTTATCTCATA
1 TATTATTATTTTAAAGTTA-CT-ATA
18232486 T-TTATT
1 TATTATT
18232492 TTATTGTTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
23 10 0.36
24 15 0.54
25 3 0.11
ACGTcount: A:0.33, C:0.05, G:0.05, T:0.56
Consensus pattern (24 bp):
TATTATTATTTTAAAGTTACTATA
Found at i:18237548 original size:60 final size:60
Alignment explanation
Indices: 18237419--18237544 Score: 164
Period size: 60 Copynumber: 2.1 Consensus size: 60
18237409 TTGACTTTGA
* * * * * * *
18237419 AATTTTTATAATTTGAACTACATTGACAAATTTTGTAAATGTTAAGGGCTAAATTTATTG
1 AATTTTTAGAATTTAAACTAAAATGACAAATCTTGTAAATATTAAGGGATAAATTTATTG
* *
18237479 AATTTTTAGAATTTAAACTAAAATGACAAATCTTGTAAATATTGA-GGATAAATTTGTTG
1 AATTTTTAGAATTTAAACTAAAATGACAAATCTTGTAAATATTAAGGGATAAATTTATTG
18237538 AATTTTT
1 AATTTTT
18237545 TAGATAGAAT
Statistics
Matches: 57, Mismatches: 9, Indels: 1
0.85 0.13 0.01
Matches are distributed among these distances:
59 19 0.33
60 38 0.67
ACGTcount: A:0.39, C:0.06, G:0.13, T:0.43
Consensus pattern (60 bp):
AATTTTTAGAATTTAAACTAAAATGACAAATCTTGTAAATATTAAGGGATAAATTTATTG
Found at i:18239105 original size:12 final size:12
Alignment explanation
Indices: 18239088--18239145 Score: 62
Period size: 12 Copynumber: 4.8 Consensus size: 12
18239078 GGGTAGGGTT
18239088 TGATTATGTATC
1 TGATTATGTATC
* *
18239100 TGATTATGCATT
1 TGATTATGTATC
*
18239112 TGATTCTGTATC
1 TGATTATGTATC
* *
18239124 TGAATATGCATC
1 TGATTATGTATC
*
18239136 TGATTTTGTA
1 TGATTATGTA
18239146 ACTAAACTGC
Statistics
Matches: 35, Mismatches: 11, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
12 35 1.00
ACGTcount: A:0.24, C:0.10, G:0.17, T:0.48
Consensus pattern (12 bp):
TGATTATGTATC
Found at i:18239121 original size:24 final size:24
Alignment explanation
Indices: 18239086--18239145 Score: 84
Period size: 24 Copynumber: 2.5 Consensus size: 24
18239076 GGGGGTAGGG
*
18239086 TTTGATTATGTATCTGATTATGCA
1 TTTGATTATGTATCTGAATATGCA
*
18239110 TTTGATTCTGTATCTGAATATGCA
1 TTTGATTATGTATCTGAATATGCA
* *
18239134 TCTGATTTTGTA
1 TTTGATTATGTA
18239146 ACTAAACTGC
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.23, C:0.10, G:0.17, T:0.50
Consensus pattern (24 bp):
TTTGATTATGTATCTGAATATGCA
Found at i:18240879 original size:60 final size:60
Alignment explanation
Indices: 18240815--18240948 Score: 155
Period size: 59 Copynumber: 2.2 Consensus size: 60
18240805 TTAGCCAACT
* *
18240815 GGTGACCAAAAAAGACAAAAT-CGAATAGTTGGGTGATTATTTAGTAATTTTTCATATTTG
1 GGTGACCAAAAAAGACAAAATACGAATAGTTGGGT-ACTATTTAGTAATTTTTCATAGTTG
* * ** * *
18240875 GGTGATCAAAAAAG-GAATTTACTAATAGTTGGGTACTATTTTGTAATTTTTCATAGTTG
1 GGTGACCAAAAAAGACAAAATACGAATAGTTGGGTACTATTTAGTAATTTTTCATAGTTG
* *
18240934 AGTAACCAAAAAAGA
1 GGTGACCAAAAAAGA
18240949 AACCATAATT
Statistics
Matches: 61, Mismatches: 11, Indels: 4
0.80 0.14 0.05
Matches are distributed among these distances:
59 36 0.59
60 25 0.41
ACGTcount: A:0.38, C:0.08, G:0.19, T:0.34
Consensus pattern (60 bp):
GGTGACCAAAAAAGACAAAATACGAATAGTTGGGTACTATTTAGTAATTTTTCATAGTTG
Found at i:18245376 original size:23 final size:23
Alignment explanation
Indices: 18245342--18245386 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
18245332 ATTTAAACTA
**
18245342 AAAATCAACAAATTTAACAATCG
1 AAAATCAACAAATAGAACAATCG
18245365 AAAAT-AATCAAATAGAACAATC
1 AAAATCAA-CAAATAGAACAATC
18245387 AGGAGATCAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 2 0.11
23 17 0.89
ACGTcount: A:0.60, C:0.16, G:0.04, T:0.20
Consensus pattern (23 bp):
AAAATCAACAAATAGAACAATCG
Found at i:18253828 original size:35 final size:35
Alignment explanation
Indices: 18253770--18253863 Score: 84
Period size: 35 Copynumber: 2.7 Consensus size: 35
18253760 ATAAATTTAG
* **
18253770 TATAAATACAATTTAATTTATATTGT-ATTATTTGAT
1 TATAAATATAATTTAA-AAATATTGTGA-TATTTGAT
* * *
18253806 T-TAAATATAATTTGTAAAATATTTTGATATTTTAT
1 TATAAATATAATTT-AAAAATATTGTGATATTTGAT
*
18253841 TATGAATATAATTTAAAAATATT
1 TATAAATATAATTTAAAAATATT
18253864 TAAATTTTAT
Statistics
Matches: 47, Mismatches: 8, Indels: 7
0.76 0.13 0.11
Matches are distributed among these distances:
35 33 0.70
36 14 0.30
ACGTcount: A:0.43, C:0.01, G:0.05, T:0.51
Consensus pattern (35 bp):
TATAAATATAATTTAAAAATATTGTGATATTTGAT
Found at i:18255443 original size:6 final size:6
Alignment explanation
Indices: 18255432--18255465 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
18255422 AAGTTTCCAA
*
18255432 AAATGG AAATGG AAAT-G AAATGA AAATGG AAATG
1 AAATGG AAATGG AAATGG AAATGG AAATGG AAATG
18255466 ATCCATTTGC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
5 5 0.20
6 20 0.80
ACGTcount: A:0.56, C:0.00, G:0.26, T:0.18
Consensus pattern (6 bp):
AAATGG
Found at i:18255458 original size:17 final size:17
Alignment explanation
Indices: 18255432--18255466 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
18255422 AAGTTTCCAA
*
18255432 AAATGGAAATGGAAATG
1 AAATGAAAATGGAAATG
18255449 AAATGAAAATGGAAATG
1 AAATGAAAATGGAAATG
18255466 A
1 A
18255467 TCCATTTGCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.57, C:0.00, G:0.26, T:0.17
Consensus pattern (17 bp):
AAATGAAAATGGAAATG
Found at i:18255685 original size:25 final size:26
Alignment explanation
Indices: 18255617--18255685 Score: 86
Period size: 26 Copynumber: 2.7 Consensus size: 26
18255607 TTTCTTGAAC
* *
18255617 TTTTACCAAGGGTAAAATCGTCAAAA
1 TTTTACTAGGGGTAAAATCGTCAAAA
*
18255643 TTTTACTAGGGGTAAAATTGTCAAAA
1 TTTTACTAGGGGTAAAATCGTCAAAA
* *
18255669 TTTT-GTTGGGGTAAAAT
1 TTTTACTAGGGGTAAAAT
18255686 AGGGATAATA
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
25 11 0.29
26 27 0.71
ACGTcount: A:0.36, C:0.09, G:0.20, T:0.35
Consensus pattern (26 bp):
TTTTACTAGGGGTAAAATCGTCAAAA
Found at i:18256922 original size:25 final size:27
Alignment explanation
Indices: 18256894--18256943 Score: 68
Period size: 25 Copynumber: 1.9 Consensus size: 27
18256884 CTATTAAAAC
*
18256894 TCTTCTAAA-AAAACTC-AAGAGAAGT
1 TCTTCAAAAGAAAACTCAAAGAGAAGT
*
18256919 TCTTGAAAAGAAAACTCAAAGAGAA
1 TCTTCAAAAGAAAACTCAAAGAGAA
18256944 TTTATTATCT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 7 0.33
26 7 0.33
27 7 0.33
ACGTcount: A:0.52, C:0.14, G:0.14, T:0.20
Consensus pattern (27 bp):
TCTTCAAAAGAAAACTCAAAGAGAAGT
Found at i:18261297 original size:14 final size:14
Alignment explanation
Indices: 18261278--18261304 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
18261268 ATAAAAACCA
18261278 AAATTAAAAGTCAC
1 AAATTAAAAGTCAC
18261292 AAATTAAAAGTCA
1 AAATTAAAAGTCA
18261305 AAGCACAACC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.59, C:0.11, G:0.07, T:0.22
Consensus pattern (14 bp):
AAATTAAAAGTCAC
Found at i:18271725 original size:16 final size:16
Alignment explanation
Indices: 18271704--18271735 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
18271694 CAATCTAAAA
18271704 TATCAAAACACCAATT
1 TATCAAAACACCAATT
*
18271720 TATCAAAACCCCAATT
1 TATCAAAACACCAATT
18271736 GAGATACTTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.47, C:0.28, G:0.00, T:0.25
Consensus pattern (16 bp):
TATCAAAACACCAATT
Found at i:18277311 original size:17 final size:15
Alignment explanation
Indices: 18277279--18277313 Score: 52
Period size: 17 Copynumber: 2.2 Consensus size: 15
18277269 TTAAAAGTAA
18277279 AATAATATAACATAC
1 AATAATATAACATAC
18277294 AATAACTATAATCATAC
1 AATAA-TATAA-CATAC
18277311 AAT
1 AAT
18277314 TATTCAATTC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 5 0.28
16 5 0.28
17 8 0.44
ACGTcount: A:0.57, C:0.14, G:0.00, T:0.29
Consensus pattern (15 bp):
AATAATATAACATAC
Found at i:18278504 original size:20 final size:19
Alignment explanation
Indices: 18278481--18278528 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 19
18278471 TTTCTCCCTA
18278481 TTTCATTTCTATTCTGTTTC
1 TTTCATTTCT-TTCTGTTTC
*
18278501 TTTCTATTTCTTTTTGTTTC
1 TTTC-ATTTCTTTCTGTTTC
*
18278521 TTTTATTT
1 TTTCATTT
18278529 ATTATATTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 4 0.16
20 15 0.60
21 6 0.24
ACGTcount: A:0.08, C:0.15, G:0.04, T:0.73
Consensus pattern (19 bp):
TTTCATTTCTTTCTGTTTC
Found at i:18281775 original size:27 final size:27
Alignment explanation
Indices: 18281745--18282047 Score: 373
Period size: 27 Copynumber: 11.3 Consensus size: 27
18281735 TATAACAATC
*
18281745 ATTTTACCCTAT-GGGGGTATTTTC-ATA
1 ATTTTACCCT-TCGAGGGTA-TTTCGATA
18281772 ATTTTACCCTTCGAGGGTATTTCGATA
1 ATTTTACCCTTCGAGGGTATTTCGATA
* *
18281799 ATTTTACCCTTTGGGGGTATTTC-AGTA
1 ATTTTACCCTTCGAGGGTATTTCGA-TA
* *
18281826 ATTTTACCCTTCAAAGGTATTTCGATA
1 ATTTTACCCTTCGAGGGTATTTCGATA
* * *
18281853 ATTTTACCTTTCAAGGGTATTTCGGTA
1 ATTTTACCCTTCGAGGGTATTTCGATA
* *
18281880 ATTTTACCCTTC-AGAGTGTTTCGATA
1 ATTTTACCCTTCGAGGGTATTTCGATA
18281906 ATTTTACCCTTCGAGGGTATTTCGATA
1 ATTTTACCCTTCGAGGGTATTTCGATA
*
18281933 ATTTTACCCTTTGAGGGTATTTCGATA
1 ATTTTACCCTTCGAGGGTATTTCGATA
* * *
18281960 CTTTTACCCTTCGAGGGTATTCCAATA
1 ATTTTACCCTTCGAGGGTATTTCGATA
* *
18281987 ATTTTACCTTTCGGGGGTATTTCGATA
1 ATTTTACCCTTCGAGGGTATTTCGATA
**
18282014 ATTTTACCCTTCGAATGTATTTC-AGTA
1 ATTTTACCCTTCGAGGGTATTTCGA-TA
18282041 ATTTTAC
1 ATTTTAC
18282048 GACCCAAGCC
Statistics
Matches: 240, Mismatches: 30, Indels: 12
0.85 0.11 0.04
Matches are distributed among these distances:
26 30 0.12
27 209 0.87
28 1 0.00
ACGTcount: A:0.23, C:0.17, G:0.17, T:0.43
Consensus pattern (27 bp):
ATTTTACCCTTCGAGGGTATTTCGATA
Found at i:18281965 original size:134 final size:133
Alignment explanation
Indices: 18281765--18282047 Score: 417
Period size: 134 Copynumber: 2.1 Consensus size: 133
18281755 ATGGGGGTAT
*
18281765 TTTCATAATTTTACCCTTCGAGGGTATTTCGATAATTTTACCCTTTGGGGGTATTTCAGTAATTT
1 TTTCATAATTTTACCCTTCGAGGGTATTTCGATAATTTTACCCTTTGAGGGTATTTCAGTAATTT
* * *
18281830 TACCCTTCAAAGGTATTTCGATAATTTTACCTTTCAAGGGTATTTCGGTAATTTTACCCTTCAGA
66 TACCCTTCAAAGGTATTCCAATAATTTTACCTTTCAAGGGTATTTCGATAATTTTACCCTTCAGA
18281895 GTG
131 GTG
*
18281898 TTTCGATAATTTTACCCTTCGAGGGTATTTCGATAATTTTACCCTTTGAGGGTATTTC-GATACT
1 TTTC-ATAATTTTACCCTTCGAGGGTATTTCGATAATTTTACCCTTTGAGGGTATTTCAG-TAAT
* * **
18281962 TTTACCCTTCGAGGGTATTCCAATAATTTTACCTTTCGGGGGTATTTCGATAATTTTACCCTTC-
64 TTTACCCTTCAAAGGTATTCCAATAATTTTACCTTTCAAGGGTATTTCGATAATTTTACCCTTCA
*
18282026 GAATGTA
129 G-A-GTG
18282033 TTTCAGTAATTTTAC
1 TTTCA-TAATTTTAC
18282048 GACCCAAGCC
Statistics
Matches: 135, Mismatches: 10, Indels: 8
0.88 0.07 0.05
Matches are distributed among these distances:
133 6 0.04
134 114 0.84
135 15 0.11
ACGTcount: A:0.23, C:0.18, G:0.16, T:0.43
Consensus pattern (133 bp):
TTTCATAATTTTACCCTTCGAGGGTATTTCGATAATTTTACCCTTTGAGGGTATTTCAGTAATTT
TACCCTTCAAAGGTATTCCAATAATTTTACCTTTCAAGGGTATTTCGATAATTTTACCCTTCAGA
GTG
Found at i:18283555 original size:21 final size:21
Alignment explanation
Indices: 18283530--18283574 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
18283520 ACCCAGGACT
18283530 TTTCCAACTCCTCTCAAGACC
1 TTTCCAACTCCTCTCAAGACC
* *
18283551 TTTCCAACTCCTCTTAGGACC
1 TTTCCAACTCCTCTCAAGACC
18283572 TTT
1 TTT
18283575 AACCACGAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.20, C:0.38, G:0.07, T:0.36
Consensus pattern (21 bp):
TTTCCAACTCCTCTCAAGACC
Found at i:18288035 original size:18 final size:19
Alignment explanation
Indices: 18288014--18288055 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
18288004 GCCGAATTTT
18288014 CTCTTCTCATC-TCTTCTC
1 CTCTTCTCATCATCTTCTC
**
18288032 CTC-TCTTTTCATCTTCTC
1 CTCTTCTCATCATCTTCTC
18288050 CTCTTC
1 CTCTTC
18288056 ATTCTAGTGC
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
17 5 0.25
18 13 0.65
19 2 0.10
ACGTcount: A:0.05, C:0.43, G:0.00, T:0.52
Consensus pattern (19 bp):
CTCTTCTCATCATCTTCTC
Found at i:18288821 original size:27 final size:27
Alignment explanation
Indices: 18288791--18289159 Score: 304
Period size: 27 Copynumber: 13.8 Consensus size: 27
18288781 ACAATGATCG
18288791 AAATACCCTTGAAGGGTAAAATGACCA
1 AAATACCCTTGAAGGGTAAAATGACCA
* *
18288818 AAATA-CCTATAAAGGGTAAAATGACCG
1 AAATACCCT-TGAAGGGTAAAATGACCA
* * *
18288845 AAATACCC--AAATGGTAAAATGACCG
1 AAATACCCTTGAAGGGTAAAATGACCA
* * ***
18288870 AAATACCCTCGAAGGGTAAAATAATTG
1 AAATACCCTTGAAGGGTAAAATGACCA
** *
18288897 AAATACCCTCAAAAGGTAAAATGACCA
1 AAATACCCTTGAAGGGTAAAATGACCA
* * *
18288924 AAAT--TCTCGAAGGGTAAAATGACCG
1 AAATACCCTTGAAGGGTAAAATGACCA
** ** * *
18288949 AAATACCCCCGAAGAATAAAATAACTA
1 AAATACCCTTGAAGGGTAAAATGACCA
** * *
18288976 AAATACCCCCGAAAGGTAAAATGACCG
1 AAATACCCTTGAAGGGTAAAATGACCA
* *
18289003 AAATA-CCTTCAAAAGGTAAAATGACCA
1 AAATACCCTT-GAAGGGTAAAATGACCA
*
18289030 AAATACCCTTGAAGGGTAAAATGACTA
1 AAATACCCTTGAAGGGTAAAATGACCA
* ** *
18289057 AAATA-CCTACGAAGGGTAAAATGGTCG
1 AAATACCCT-TGAAGGGTAAAATGACCA
*
18289084 AAATACCCTTGAAGGGTAAAATTACCA
1 AAATACCCTTGAAGGGTAAAATGACCA
* * *
18289111 AAATACCCTTAAAAGGTAAAATGACTA
1 AAATACCCTTGAAGGGTAAAATGACCA
*
18289138 AAATACCC-TCATAGGGTAAAAT
1 AAATACCCTTGA-AGGGTAAAAT
18289160 AACTATTATA
Statistics
Matches: 277, Mismatches: 54, Indels: 22
0.78 0.15 0.06
Matches are distributed among these distances:
25 45 0.16
26 10 0.04
27 213 0.77
28 9 0.03
ACGTcount: A:0.47, C:0.18, G:0.16, T:0.19
Consensus pattern (27 bp):
AAATACCCTTGAAGGGTAAAATGACCA
Found at i:18289023 original size:54 final size:54
Alignment explanation
Indices: 18288783--18289159 Score: 351
Period size: 54 Copynumber: 7.1 Consensus size: 54
18288773 AATGGGCCAC
* * * **
18288783 AATGATCGAAATACCCTT-GAAGGGTAAAATGACCAAAATA-CCTATAAAGGGTAA
1 AATGACCGAAATA-CCTTCAAAAGGTAAAATGACCAAAATACCCT-CGAAGGGTAA
* *
18288837 AATGACCGAAATACC--CAAATGGTAAAATGACCGAAATACCCTCGAAGGGTAA
1 AATGACCGAAATACCTTCAAAAGGTAAAATGACCAAAATACCCTCGAAGGGTAA
* ** * *
18288889 AATAATTGAAATACCCTCAAAAGGTAAAATGACCAAAAT--TCTCGAAGGGTAA
1 AATGACCGAAATACCTTCAAAAGGTAAAATGACCAAAATACCCTCGAAGGGTAA
** * * * *
18288941 AATGACCGAAATACCCCCGAAGAA--TAAAATAACTAAAATACCCCCGAAAGGTAA
1 AATGACCGAAATACCTTC-AA-AAGGTAAAATGACCAAAATACCCTCGAAGGGTAA
*
18288995 AATGACCGAAATACCTTCAAAAGGTAAAATGACCAAAATACCCTTGAAGGGTAA
1 AATGACCGAAATACCTTCAAAAGGTAAAATGACCAAAATACCCTCGAAGGGTAA
** * * * ** * *
18289049 AATGACTAAAATACCTACGAAGGGTAAAATGGTCGAAATACCCTTGAAGGGTAA
1 AATGACCGAAATACCTTCAAAAGGTAAAATGACCAAAATACCCTCGAAGGGTAA
* * *
18289103 AATTACCAAAATACCCTT-AAAAGGTAAAATGACTAAAATACCCTC-ATAGGGTAA
1 AATGACCGAAATA-CCTTCAAAAGGTAAAATGACCAAAATACCCTCGA-AGGGTAA
18289157 AAT
1 AAT
18289160 AACTATTATA
Statistics
Matches: 265, Mismatches: 46, Indels: 24
0.79 0.14 0.07
Matches are distributed among these distances:
52 80 0.30
53 10 0.04
54 172 0.65
55 3 0.01
ACGTcount: A:0.47, C:0.18, G:0.16, T:0.19
Consensus pattern (54 bp):
AATGACCGAAATACCTTCAAAAGGTAAAATGACCAAAATACCCTCGAAGGGTAA
Found at i:18289051 original size:81 final size:80
Alignment explanation
Indices: 18288791--18289147 Score: 389
Period size: 79 Copynumber: 4.5 Consensus size: 80
18288781 ACAATGATCG
* **
18288791 AAATACCCTTGAAGGGTAAAATGACCAAAATA-CCTATAAAGGGTAAAATGACCGAAATACC-CA
1 AAATACCCTTGAAGGGTAAAATGACTAAAATACCCTCGAAA-GGTAAAATGACCGAAATACCTCA
* *
18288854 AATGGTAAAATGACCG
65 AAGGGTAAAATGACCA
* * * * * * * *
18288870 AAATACCCTCGAAGGGTAAAATAATTGAAATACCCTCAAAAGGTAAAATGACCAAAAT-TCTCGA
1 AAATACCCTTGAAGGGTAAAATGACTAAAATACCCTCGAAAGGTAAAATGACCGAAATACCTCAA
*
18288934 AGGGTAAAATGACCG
66 AGGGTAAAATGACCA
** ** * *
18288949 AAATACCCCCGAAGAATAAAATAACTAAAATACCCCCGAAAGGTAAAATGACCGAAATACCTTCA
1 AAATACCCTTGAAGGGTAAAATGACTAAAATACCCTCGAAAGGTAAAATGACCGAAATACC-TCA
*
18289014 AAAGGTAAAATGACCA
65 AAGGGTAAAATGACCA
* ** *
18289030 AAATACCCTTGAAGGGTAAAATGACTAAAATA-CCTACGAAGGGTAAAATGGTCGAAATACCCTT
1 AAATACCCTTGAAGGGTAAAATGACTAAAATACCCT-CGAAAGGTAAAATGACCGAAATA-CCTC
* *
18289094 GAAGGGTAAAATTACCA
64 AAAGGGTAAAATGACCA
* *
18289111 AAATACCCTTAAAAGGTAAAATGACTAAAATACCCTC
1 AAATACCCTTGAAGGGTAAAATGACTAAAATACCCTC
18289148 ATAGGGTAAA
Statistics
Matches: 233, Mismatches: 38, Indels: 12
0.82 0.13 0.04
Matches are distributed among these distances:
78 1 0.00
79 109 0.47
80 9 0.04
81 109 0.47
82 5 0.02
ACGTcount: A:0.47, C:0.19, G:0.16, T:0.18
Consensus pattern (80 bp):
AAATACCCTTGAAGGGTAAAATGACTAAAATACCCTCGAAAGGTAAAATGACCGAAATACCTCAA
AGGGTAAAATGACCA
Found at i:18289154 original size:81 final size:80
Alignment explanation
Indices: 18288791--18289159 Score: 372
Period size: 81 Copynumber: 4.6 Consensus size: 80
18288781 ACAATGATCG
* * *
18288791 AAATACCCTTGAAGGGTAAAATGACCAAAATACCTATAAAGGGTAAAATGACCGAAATACCC--A
1 AAATACCCTTGAAGGGTAAAATGACTAAAATACC-CTCAAGGGTAAAATGACCGAAATACCCTTA
* *
18288854 AATGGTAAAATGACCG
65 AAGGGTAAAATGACCA
* * * * * ** **
18288870 AAATACCCTCGAAGGGTAAAATAATTGAAATACCCTCAAAAGGTAAAATGACC-AAA-ATTCTCG
1 AAATACCCTTGAAGGGTAAAATGACTAAAATACCCTC-AAGGGTAAAATGACCGAAATACCCTTA
*
18288933 AAGGGTAAAATGACCG
65 AAGGGTAAAATGACCA
** ** * * *
18288949 AAATACCCCCGAAGAATAAAATAACTAAAATACCCCCGAAAGGTAAAATGACCGAAATA-CCTTC
1 AAATACCCTTGAAGGGTAAAATGACTAAAATACCCTC-AAGGGTAAAATGACCGAAATACCCTT-
*
18289013 AAAAGGTAAAATGACCA
64 AAAGGGTAAAATGACCA
**
18289030 AAATACCCTTGAAGGGTAAAATGACTAAAATA-CCTACGAAGGGTAAAATGGTCGAAATACCCTT
1 AAATACCCTTGAAGGGTAAAATGACTAAAATACCCT-C-AAGGGTAAAATGACCGAAATACCCTT
* *
18289094 GAAGGGTAAAATTACCA
64 AAAGGGTAAAATGACCA
* *
18289111 AAATACCCTTAAAAGGTAAAATGACTAAAATACCCTCATAGGGTAAAAT
1 AAATACCCTTGAAGGGTAAAATGACTAAAATACCCTCA-AGGGTAAAAT
18289160 AACTATTATA
Statistics
Matches: 242, Mismatches: 38, Indels: 18
0.81 0.13 0.06
Matches are distributed among these distances:
77 2 0.01
78 4 0.02
79 104 0.43
80 8 0.03
81 117 0.48
82 7 0.03
ACGTcount: A:0.47, C:0.18, G:0.16, T:0.19
Consensus pattern (80 bp):
AAATACCCTTGAAGGGTAAAATGACTAAAATACCCTCAAGGGTAAAATGACCGAAATACCCTTAA
AGGGTAAAATGACCA
Found at i:18289566 original size:28 final size:28
Alignment explanation
Indices: 18289526--18289586 Score: 97
Period size: 28 Copynumber: 2.2 Consensus size: 28
18289516 ATTGTATTGA
* *
18289526 TTACTCTATTGGGCTAAGGCCCACACTG
1 TTACTGTAATGGGCTAAGGCCCACACTG
18289554 TTACTGTAATGGGCTAAGGCCCACACTG
1 TTACTGTAATGGGCTAAGGCCCACACTG
18289582 -TACTG
1 TTACTG
18289587 ATACTATATA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
27 5 0.16
28 26 0.84
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.28
Consensus pattern (28 bp):
TTACTGTAATGGGCTAAGGCCCACACTG
Found at i:18296988 original size:27 final size:27
Alignment explanation
Indices: 18296958--18297161 Score: 122
Period size: 27 Copynumber: 7.8 Consensus size: 27
18296948 AGAATGAATA
* *
18296958 AAATACCCTCGATGGATAAAATTATCG
1 AAATACCCTCAATGGGTAAAATTATCG
*
18296985 AAATA-CCT-AATGGGTAAAATTACCG
1 AAATACCCTCAATGGGTAAAATTATCG
* ** **
18297010 AAATACCC-CTGATAAGTAAAATTATAA
1 AAATACCCTC-AATGGGTAAAATTATCG
* * *
18297037 AAATA---AC-AT-CGTAAAATTATTG
1 AAATACCCTCAATGGGTAAAATTATCG
*
18297059 AAATACCCTTAATGGGTAAAATTATCG
1 AAATACCCTCAATGGGTAAAATTATCG
* * * *
18297086 AAATACCC-CTAAAGGGTAAAATAACCA
1 AAATACCCTC-AATGGGTAAAATTATCG
* * * *
18297113 AAATACCATCGATGGGTAAAATTACCA
1 AAATACCCTCAATGGGTAAAATTATCG
*
18297140 AAATACCC-CTATAGGGTAAAAT
1 AAATACCCTCAAT-GGGTAAAAT
18297162 AACTATTATA
Statistics
Matches: 138, Mismatches: 27, Indels: 24
0.73 0.14 0.13
Matches are distributed among these distances:
22 15 0.11
23 2 0.01
25 20 0.14
26 10 0.07
27 90 0.65
28 1 0.01
ACGTcount: A:0.46, C:0.17, G:0.13, T:0.25
Consensus pattern (27 bp):
AAATACCCTCAATGGGTAAAATTATCG
Found at i:18297090 original size:49 final size:51
Alignment explanation
Indices: 18296958--18297136 Score: 137
Period size: 49 Copynumber: 3.5 Consensus size: 51
18296948 AGAATGAATA
* * * *
18296958 AAATACCCTCGATGGATAAAATTATCGAAATACCTAATGGGTAAAATTACCG
1 AAATACCCTTGATGGGTAAAATTATCGAAATAAC-AATGCGTAAAATTACCG
* ** ** **
18297010 AAATACCCCTGATAAGTAAAATTATAAAAATAAC-AT-CGTAAAATTATTG
1 AAATACCCTTGATGGGTAAAATTATCGAAATAACAATGCGTAAAATTACCG
* * * * * *
18297059 AAATACCCTTAATGGGTAAAATTATCGAAATACCCCTAAAGGGTAAAATAACCA
1 AAATACCCTTGATGGGTAAAATTATCGAAATA--AC-AATGCGTAAAATTACCG
* *
18297113 AAATACCATCGATGGGTAAAATTA
1 AAATACCCTTGATGGGTAAAATTA
18297137 CCAAAATACC
Statistics
Matches: 95, Mismatches: 27, Indels: 8
0.73 0.21 0.06
Matches are distributed among these distances:
49 36 0.38
50 2 0.02
51 1 0.01
52 26 0.27
53 1 0.01
54 29 0.31
ACGTcount: A:0.46, C:0.16, G:0.13, T:0.25
Consensus pattern (51 bp):
AAATACCCTTGATGGGTAAAATTATCGAAATAACAATGCGTAAAATTACCG
Found at i:18297116 original size:76 final size:74
Alignment explanation
Indices: 18296974--18297123 Score: 196
Period size: 76 Copynumber: 2.0 Consensus size: 74
18296964 CCTCGATGGA
* *
18296974 TAAAATTATCGAAATACCTAATGGGTAAAATTACCGAAATACCCCTGATAAGTAAAATTATAAAA
1 TAAAATTATCGAAATACCTAATGGGTAAAATTACCGAAATACCCCTGATAAGTAAAATAACAAAA
18297039 ATAACATCG
66 ATAACATCG
* *
18297048 TAAAATTATTGAAATACCCTTAATGGGTAAAATTATCGAAATACCCCT-A-AAGGGTAAAATAAC
1 TAAAATTATCGAAATA-CC-TAATGGGTAAAATTACCGAAATACCCCTGATAA--GTAAAATAAC
* *
18297111 CAAAATACCATCG
62 AAAAATAACATCG
18297124 ATGGGTAAAA
Statistics
Matches: 66, Mismatches: 6, Indels: 6
0.85 0.08 0.08
Matches are distributed among these distances:
74 17 0.26
75 3 0.05
76 46 0.70
ACGTcount: A:0.47, C:0.16, G:0.11, T:0.25
Consensus pattern (74 bp):
TAAAATTATCGAAATACCTAATGGGTAAAATTACCGAAATACCCCTGATAAGTAAAATAACAAAA
ATAACATCG
Found at i:18313810 original size:21 final size:21
Alignment explanation
Indices: 18313784--18313826 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
18313774 AAGCGGTTTA
18313784 GGTTTCTACTATTACTTGAAT
1 GGTTTCTACTATTACTTGAAT
18313805 GGTTTCTACTATTACTTGAAT
1 GGTTTCTACTATTACTTGAAT
18313826 G
1 G
18313827 AATATGTACT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.23, C:0.14, G:0.16, T:0.47
Consensus pattern (21 bp):
GGTTTCTACTATTACTTGAAT
Found at i:18321238 original size:29 final size:29
Alignment explanation
Indices: 18321206--18321280 Score: 71
Period size: 29 Copynumber: 2.6 Consensus size: 29
18321196 AAAAAGCTCC
18321206 TTAAAATAAAAAAAAACATAAAAAT-ATTT
1 TTAAAATAAAAAAAAA-ATAAAAATAATTT
* * * *
18321235 TTAAATTTATAATAAAAATGAAAATAATTT
1 TTAAA-ATAAAAAAAAAATAAAAATAATTT
* *
18321265 TAAAAATTAAAAAAAA
1 TTAAAATAAAAAAAAA
18321281 TCCAAGATTT
Statistics
Matches: 35, Mismatches: 9, Indels: 4
0.73 0.19 0.08
Matches are distributed among these distances:
29 19 0.54
30 16 0.46
ACGTcount: A:0.67, C:0.01, G:0.01, T:0.31
Consensus pattern (29 bp):
TTAAAATAAAAAAAAAATAAAAATAATTT
Found at i:18321764 original size:15 final size:15
Alignment explanation
Indices: 18321731--18321766 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
18321721 TATCTACATT
**
18321731 TAAAATAAAAATACG
1 TAAAATAAAAATAAA
18321746 TAAAATAAAAATAAA
1 TAAAATAAAAATAAA
18321761 TAAAAT
1 TAAAAT
18321767 CCACAATATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.72, C:0.03, G:0.03, T:0.22
Consensus pattern (15 bp):
TAAAATAAAAATAAA
Found at i:18321900 original size:7 final size:7
Alignment explanation
Indices: 18321888--18321913 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
18321878 AAGTTGCGAA
18321888 TGCCTAT
1 TGCCTAT
18321895 TGCCTAT
1 TGCCTAT
18321902 TGCCTAT
1 TGCCTAT
18321909 TGCCT
1 TGCCT
18321914 GTGCCGGACT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.12, C:0.31, G:0.15, T:0.42
Consensus pattern (7 bp):
TGCCTAT
Found at i:18326113 original size:3 final size:3
Alignment explanation
Indices: 18326105--18326152 Score: 53
Period size: 3 Copynumber: 16.3 Consensus size: 3
18326095 GAAAAAGTAA
* * * *
18326105 AAG AAG AAG AAG ATG -AG GAG AAG AAG AAG AAG AAG AAA AAG GAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
18326152 A
1 A
18326153 GGAAAAATAG
Statistics
Matches: 37, Mismatches: 7, Indels: 2
0.80 0.15 0.04
Matches are distributed among these distances:
2 1 0.03
3 36 0.97
ACGTcount: A:0.62, C:0.00, G:0.35, T:0.02
Consensus pattern (3 bp):
AAG
Found at i:18326509 original size:36 final size:37
Alignment explanation
Indices: 18326469--18326571 Score: 122
Period size: 36 Copynumber: 2.9 Consensus size: 37
18326459 TTGAAAACCG
* * * *
18326469 GCTTATGTTTTGTA-ATATTGTTGCTGGTATATTGTT
1 GCTTATGTTTGGTATACATGGTTGCTAGTATATTGTT
18326505 GCTTATG-TTGGTATACATGGTTGCTAGTATATTGTT
1 GCTTATGTTTGGTATACATGGTTGCTAGTATATTGTT
* * *
18326541 GCTTATG-TTGTTATACATGGCTGCTGGTATA
1 GCTTATGTTTGGTATACATGGTTGCTAGTATA
18326572 AATGGCTAAC
Statistics
Matches: 59, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
35 5 0.08
36 54 0.92
ACGTcount: A:0.18, C:0.09, G:0.24, T:0.49
Consensus pattern (37 bp):
GCTTATGTTTGGTATACATGGTTGCTAGTATATTGTT
Found at i:18341064 original size:114 final size:113
Alignment explanation
Indices: 18340935--18341170 Score: 382
Period size: 114 Copynumber: 2.1 Consensus size: 113
18340925 AAAATAAGCA
* * *
18340935 TTAGCGGTGTTTTTTTGAAAGCGCCGCAAAAAGCCTAAGCCAAACGGCACCGTTTTCTGAGTTTT
1 TTAGCGGCGTTTTTTTAAAAGCGCCGCAAAAAGCCTAAACCAAACGGCACCGTTTTCTGAGTTTT
* *
18341000 GGGGGGTTTTTAGCGGCGTTTCTATAAAGCGCCGCTAATGCTCAGGTCT
66 -GGGGGTCTTTAGCGGCGTTTCTATAAAGCGCCGCTAATGCTCAAGTCT
* *
18341049 TTAGCGGCGTTTTTTTAAAAGCGCCGCAAAAAGCCTAAACCCAACGGCACCGTTTTTTGAGTTTT
1 TTAGCGGCGTTTTTTTAAAAGCGCCGCAAAAAGCCTAAACCAAACGGCACCGTTTTCTGAGTTTT
* *
18341114 TGGGGTCTTTAGCGGCGTTTCTGTAAAGCGCCGCTAATGCTCAAGTCT
66 GGGGGTCTTTAGCGGCGTTTCTATAAAGCGCCGCTAATGCTCAAGTCT
18341162 TTAGCGGCG
1 TTAGCGGCG
18341171 CCCTAAACCC
Statistics
Matches: 113, Mismatches: 9, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
113 53 0.47
114 60 0.53
ACGTcount: A:0.21, C:0.22, G:0.26, T:0.31
Consensus pattern (113 bp):
TTAGCGGCGTTTTTTTAAAAGCGCCGCAAAAAGCCTAAACCAAACGGCACCGTTTTCTGAGTTTT
GGGGGTCTTTAGCGGCGTTTCTATAAAGCGCCGCTAATGCTCAAGTCT
Found at i:18341336 original size:205 final size:204
Alignment explanation
Indices: 18340985--18341374 Score: 656
Period size: 205 Copynumber: 1.9 Consensus size: 204
18340975 CAAACGGCAC
* *
18340985 CGTTTTCTGAGTTTTGGGGGGTTTTTAGCGGCGTTTCTATAAAGCGCCGCTAATGCTCAGGTCTT
1 CGTTTTCTGAGTTTTGGGGGGTCTTTAGCGGCGTTTCTAGAAAGCGCCGCTAATGCTCAGGTCTT
*
18341050 TAGCGGCGTTTTTTTAAAAGCGCCGCAAAAAGCCTAAACCCAACGGCACCGTTTTTTGAGTTTTT
66 TAGCGGCGTTTTTTTAAAAGCGCCGCAAAAAGCCTAAACCCAACGGCACCGTTTTCTGAGTTTTT
* * *
18341115 GGGGTCTTTAGCGGCGTTTCTGTAAAGCGCCGCTAATGCTCAAGTCTTTAGCGGCGCCCTAAACC
131 AGGGTCTTTAGCGGCGTTTCAGCAAAGCGCCGCTAATGCTCAAGTCTTTAGCGGCGCCCTAAACC
18341180 CAACAGCAT
196 CAACAGCAT
* *
18341189 CGTTTTCTGAGTTTT-TGGGGTCTTTAGCGGCGTTTTCTGGAAAGCGCCGCTAATGCTCAGGTCT
1 CGTTTTCTGAGTTTTGGGGGGTCTTTAGCGGCG-TTTCTAGAAAGCGCCGCTAATGCTCAGGTCT
18341253 TTAGCGGCGTTTTTTTTAAAAGCGCCGCAAAAAGCCTAAACCCAACGGCACCGTTTTCTGAGTTT
65 TTAGCGGCG-TTTTTTTAAAAGCGCCGCAAAAAGCCTAAACCCAACGGCACCGTTTTCTGAGTTT
* * *
18341318 TTAGGGTCTTTAGCGGCGTTTCAGCAGAGCGCCGCTAATGCTTAGGTCTTTAGCGGC
129 TTAGGGTCTTTAGCGGCGTTTCAGCAAAGCGCCGCTAATGCTCAAGTCTTTAGCGGC
18341375 ATTTTTTTAA
Statistics
Matches: 173, Mismatches: 11, Indels: 3
0.93 0.06 0.02
Matches are distributed among these distances:
203 15 0.09
204 53 0.31
205 105 0.61
ACGTcount: A:0.19, C:0.23, G:0.26, T:0.32
Consensus pattern (204 bp):
CGTTTTCTGAGTTTTGGGGGGTCTTTAGCGGCGTTTCTAGAAAGCGCCGCTAATGCTCAGGTCTT
TAGCGGCGTTTTTTTAAAAGCGCCGCAAAAAGCCTAAACCCAACGGCACCGTTTTCTGAGTTTTT
AGGGTCTTTAGCGGCGTTTCAGCAAAGCGCCGCTAATGCTCAAGTCTTTAGCGGCGCCCTAAACC
CAACAGCAT
Found at i:18341468 original size:114 final size:112
Alignment explanation
Indices: 18341172--18341511 Score: 484
Period size: 113 Copynumber: 3.0 Consensus size: 112
18341162 TTAGCGGCGC
* *
18341172 CCTAAACCCAAC-AGCATCGTTTTCTGAGTTTTTGGGGTCTTTAGCGGCGTTTTCTGGAAAGCGC
1 CCTAAACCCAACGA-CACCGTTTTCTGAGTTTTTGGGGTCTTTAGCGGCG-TTTCTGAAAAGCGC
18341236 CGCTAATGCTCAGGTCTTTAGCGGCGTTTTTTTTAAAAGCGCCGCAAAAAG
64 CGCTAATGCTCAGGTCTTTAGCGGC--TTTTTTTAAAAGCGCCGCAAAAAG
* * * * *
18341287 CCTAAACCCAACGGCACCGTTTTCTGAGTTTTTAGGGTCTTTAGCGGCGTTTCAGCAGAGCGCCG
1 CCTAAACCCAACGACACCGTTTTCTGAGTTTTTGGGGTCTTTAGCGGCGTTTCTGAAAAGCGCCG
*
18341352 CTAATGCTTAGGTCTTTAGCGGCATTTTTTTAAAAGCGCCGCAAAAAG
66 CTAATGCTCAGGTCTTTAGCGGC-TTTTTTTAAAAGCGCCGCAAAAAG
* *
18341400 CCTAAACCGAACGACGCCGTTTTCTGAGTTTTTGGGGTCTTTAGCGGCGTTTCTGAATAAGCGCC
1 CCTAAACCCAACGACACCGTTTTCTGAGTTTTTGGGGTCTTTAGCGGCGTTTCTGAA-AAGCGCC
* * * * *
18341465 GCTAATGCTCAGGCCTTTAGCGGCGTTGTTTAAAAACACCGCAAAAA
65 GCTAATGCTCAGGTCTTTAGCGGCTTTTTTTAAAAGCGCCGCAAAAA
18341512 CATTTTATCT
Statistics
Matches: 202, Mismatches: 21, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
113 94 0.47
114 63 0.31
115 45 0.22
ACGTcount: A:0.23, C:0.24, G:0.24, T:0.29
Consensus pattern (112 bp):
CCTAAACCCAACGACACCGTTTTCTGAGTTTTTGGGGTCTTTAGCGGCGTTTCTGAAAAGCGCCG
CTAATGCTCAGGTCTTTAGCGGCTTTTTTTAAAAGCGCCGCAAAAAG
Found at i:18342073 original size:20 final size:21
Alignment explanation
Indices: 18342039--18342077 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
18342029 TAAATAATGT
18342039 TTAGGGGTTATGGATTTAGGG
1 TTAGGGGTTATGGATTTAGGG
*
18342060 TTAGGGTTTA-GGATTTAG
1 TTAGGGGTTATGGATTTAG
18342078 ATTAATTAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.21, C:0.00, G:0.38, T:0.41
Consensus pattern (21 bp):
TTAGGGGTTATGGATTTAGGG
Found at i:18342164 original size:89 final size:89
Alignment explanation
Indices: 18342059--18342308 Score: 455
Period size: 89 Copynumber: 2.8 Consensus size: 89
18342049 TGGATTTAGG
18342059 GTTAGGGTTTAGGATTTAGATTAATTAGTGTTTTTTAATTTATATATTAAATAATGTTTAGGGGT
1 GTTAGGGTTTAGGATTTAGATTAATTAGTGTTTTTTAATTTATATATTAAATAATGTTTAGGGGT
*
18342124 TAGGGGTTAGTGATTTGGGGTCGA
66 TAGGGGTTAGTGATTCGGGGTCGA
*
18342148 GTTAGGGTTTAGGATTTAGATTAATTAGTATTTTTTAATTTATATATTAAATAATGTTTAGGGGT
1 GTTAGGGTTTAGGATTTAGATTAATTAGTGTTTTTTAATTTATATATTAAATAATGTTTAGGGGT
*
18342213 TGGGGGTTAGTGATTCGGGGTCGA
66 TAGGGGTTAGTGATTCGGGGTCGA
* *
18342237 GTTAGGGTTTAGGATTTAGATTAATTAGTGTTATTTAATTTATATATTAAATAATGTTTAGGGTT
1 GTTAGGGTTTAGGATTTAGATTAATTAGTGTTTTTTAATTTATATATTAAATAATGTTTAGGGGT
18342302 TAGGGGT
66 TAGGGGT
18342309 AGGGGCTTAG
Statistics
Matches: 154, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
89 154 1.00
ACGTcount: A:0.27, C:0.01, G:0.27, T:0.45
Consensus pattern (89 bp):
GTTAGGGTTTAGGATTTAGATTAATTAGTGTTTTTTAATTTATATATTAAATAATGTTTAGGGGT
TAGGGGTTAGTGATTCGGGGTCGA
Found at i:18342335 original size:14 final size:14
Alignment explanation
Indices: 18342292--18342336 Score: 54
Period size: 14 Copynumber: 3.2 Consensus size: 14
18342282 ATTAAATAAT
*
18342292 GTTTAGGGTTTAGG
1 GTTTGGGGTTTAGG
* * *
18342306 GGTAGGGGCTTAGG
1 GTTTGGGGTTTAGG
18342320 GTTTGGGGTTTAGG
1 GTTTGGGGTTTAGG
18342334 GTT
1 GTT
18342337 AAGAGTTAGT
Statistics
Matches: 24, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.11, C:0.02, G:0.49, T:0.38
Consensus pattern (14 bp):
GTTTGGGGTTTAGG
Found at i:18342988 original size:21 final size:21
Alignment explanation
Indices: 18342964--18343010 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 21
18342954 GGACAGGACC
18342964 AAAATATAAGAAA-AAATAAAA
1 AAAATATAA-AAAGAAATAAAA
*
18342985 AAAATGTAAAAAGGAAATAAAA
1 AAAATATAAAAA-GAAATAAAA
18343007 AAAA
1 AAAA
18343011 CTAAAATTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
20 3 0.13
21 8 0.35
22 12 0.52
ACGTcount: A:0.79, C:0.00, G:0.09, T:0.13
Consensus pattern (21 bp):
AAAATATAAAAAGAAATAAAA
Found at i:18345803 original size:31 final size:30
Alignment explanation
Indices: 18345767--18345916 Score: 176
Period size: 31 Copynumber: 4.8 Consensus size: 30
18345757 TGTATAAAAA
18345767 AATTAATATTATACATAAATTACATAACTT
1 AATTAATATTATACATAAATTACATAACTT
* *
18345797 GCATTAATATTATACATAAATTACATGACTTAATT
1 -AATTAATATTATACATAAATTACAT-A---ACTT
18345832 AATTAATATTATACATAAATTACATAACTT
1 AATTAATATTATACATAAATTACATAACTT
*** *
18345862 ACATTAATGCAATACATTAATTACATAA-TT
1 A-ATTAATATTATACATAAATTACATAACTT
*
18345892 AATTAATATTATACATAACTTACAT
1 AATTAATATTATACATAAATTACAT
18345917 TAATATTATA
Statistics
Matches: 101, Mismatches: 13, Indels: 12
0.80 0.10 0.10
Matches are distributed among these distances:
29 19 0.19
30 7 0.07
31 46 0.46
32 1 0.01
33 1 0.01
34 24 0.24
35 3 0.03
ACGTcount: A:0.47, C:0.11, G:0.02, T:0.39
Consensus pattern (30 bp):
AATTAATATTATACATAAATTACATAACTT
Found at i:18345849 original size:56 final size:56
Alignment explanation
Indices: 18345787--18345972 Score: 214
Period size: 56 Copynumber: 3.2 Consensus size: 56
18345777 ATACATAAAT
* *
18345787 TACATAACTTGCATTAATATTATACATAAATTACATGACTTAATTAATTAATATTA
1 TACATAACTTACATTAATATTATACATAAATTACATAACTTAATTAATTAATATTA
* * * * *
18345843 TACATAAATTACA-TAACTTACATTAATGCAATACATTA-ATTACATAATTAATTAATATTA
1 TACATAACTTACATTAA--T--ATT-ATAC-ATAAATTACATAACTTAATTAATTAATATTA
* * *
18345903 TACATAACTTACATTAATATTATACTTAAATTACATAAGTTAGTTAATTAATATTA
1 TACATAACTTACATTAATATTATACATAAATTACATAACTTAATTAATTAATATTA
18345959 TACATAACTTACAT
1 TACATAACTTACAT
18345973 AACTTACAAC
Statistics
Matches: 108, Mismatches: 14, Indels: 16
0.78 0.10 0.12
Matches are distributed among these distances:
55 9 0.08
56 46 0.43
57 4 0.04
59 4 0.04
60 35 0.32
61 10 0.09
ACGTcount: A:0.46, C:0.11, G:0.03, T:0.40
Consensus pattern (56 bp):
TACATAACTTACATTAATATTATACATAAATTACATAACTTAATTAATTAATATTA
Found at i:18345867 original size:65 final size:63
Alignment explanation
Indices: 18345767--18345980 Score: 236
Period size: 65 Copynumber: 3.5 Consensus size: 63
18345757 TGTATAAAAA
*
18345767 AATTAATATTATACATAAATTACATAACTTGCATTAATATTATACATAAATTACATGACTTAATT
1 AATTAATATTATACATAAATTACATAACTTACATTAATATTATACATAAATTACAT-A-TTAATT
*** *
18345832 AATTAATATTATACATAAATTACATAACTTACATTAATGCAATACATTAATTAC--A-TAATT
1 AATTAATATTATACATAAATTACATAACTTACATTAATATTATACATAAATTACATATTAATT
* *
18345892 AATTAATATTATAC---------ATAACTTACATTAATATTATACTTAAATTACATAAGTTAGTT
1 AATTAATATTATACATAAATTACATAACTTACATTAATATTATACATAAATTACAT-A-TTAATT
*
18345948 AATTAATATTATACATAACTTACATAACTTACA
1 AATTAATATTATACATAAATTACATAACTTACA
18345981 ACTTACATAA
Statistics
Matches: 124, Mismatches: 11, Indels: 28
0.76 0.07 0.17
Matches are distributed among these distances:
51 26 0.21
54 1 0.01
56 18 0.15
60 19 0.15
62 1 0.01
65 59 0.48
ACGTcount: A:0.47, C:0.11, G:0.02, T:0.40
Consensus pattern (63 bp):
AATTAATATTATACATAAATTACATAACTTACATTAATATTATACATAAATTACATATTAATT
Found at i:18345908 original size:20 final size:22
Alignment explanation
Indices: 18345883--18345938 Score: 80
Period size: 22 Copynumber: 2.6 Consensus size: 22
18345873 ATACATTAAT
18345883 TACATAA-TTA-ATTAATATTA
1 TACATAACTTACATTAATATTA
18345903 TACATAACTTACATTAATATTA
1 TACATAACTTACATTAATATTA
* *
18345925 TACTTAAATTACAT
1 TACATAACTTACAT
18345939 AAGTTAGTTA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
20 7 0.22
21 3 0.09
22 22 0.69
ACGTcount: A:0.46, C:0.11, G:0.00, T:0.43
Consensus pattern (22 bp):
TACATAACTTACATTAATATTA
Found at i:18345915 original size:51 final size:54
Alignment explanation
Indices: 18345852--18345972 Score: 160
Period size: 51 Copynumber: 2.3 Consensus size: 54
18345842 ATACATAAAT
*
18345852 TACATAACTTACATTAATGCAATACATT-AATTACAT-A-A-TTAATTAATATTA
1 TACATAACTTACATTAATACAATAC-TTAAATTACATAATAGTTAATTAATATTA
**
18345903 TACATAACTTACATTAATATTATACTTAAATTACATAAGTTAGTTAATTAATATTA
1 TACATAACTTACATTAATACAATACTTAAATTACATAA--TAGTTAATTAATATTA
18345959 TACATAACTTACAT
1 TACATAACTTACAT
18345973 AACTTACAAC
Statistics
Matches: 61, Mismatches: 3, Indels: 7
0.86 0.04 0.10
Matches are distributed among these distances:
50 2 0.03
51 30 0.49
52 1 0.02
55 1 0.02
56 27 0.44
ACGTcount: A:0.45, C:0.12, G:0.02, T:0.40
Consensus pattern (54 bp):
TACATAACTTACATTAATACAATACTTAAATTACATAATAGTTAATTAATATTA
Found at i:18345973 original size:9 final size:9
Alignment explanation
Indices: 18345959--18346100 Score: 68
Period size: 9 Copynumber: 16.7 Consensus size: 9
18345949 ATTAATATTA
18345959 TACATAACT
1 TACATAACT
18345968 TACATAACT
1 TACATAACT
18345977 TAC--AACT
1 TACATAACT
18345984 TACATAACT
1 TACATAACT
***
18345993 TACATTTTTT
1 TACA-TAACT
*
18346003 TA-ATTA-T
1 TACATAACT
* *
18346010 T-CGTAAAT
1 TACATAACT
18346018 TACATAACT
1 TACATAACT
* *
18346027 TACTTAATT
1 TACATAACT
*
18346036 TTCATAA--
1 TACATAACT
*
18346043 TAAATAACT
1 TACATAACT
*
18346052 TACATAAAT
1 TACATAACT
* *
18346061 AAC-T-TCT
1 TACATAACT
18346068 TACATAACT
1 TACATAACT
** *
18346077 TATGTGACT
1 TACATAACT
18346086 TACATAACT
1 TACATAACT
18346095 TACATA
1 TACATA
18346101 GCATAATTTT
Statistics
Matches: 96, Mismatches: 27, Indels: 20
0.67 0.19 0.14
Matches are distributed among these distances:
7 19 0.20
8 6 0.06
9 67 0.70
10 4 0.04
ACGTcount: A:0.41, C:0.17, G:0.02, T:0.40
Consensus pattern (9 bp):
TACATAACT
Found at i:18345985 original size:16 final size:16
Alignment explanation
Indices: 18345964--18345996 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
18345954 TATTATACAT
18345964 AACTTACATAACTTAC
1 AACTTACATAACTTAC
18345980 AACTTACATAACTTAC
1 AACTTACATAACTTAC
18345996 A
1 A
18345997 TTTTTTTAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.45, C:0.24, G:0.00, T:0.30
Consensus pattern (16 bp):
AACTTACATAACTTAC
Found at i:18346131 original size:25 final size:25
Alignment explanation
Indices: 18346102--18346157 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
18346092 ACTTACATAG
* *
18346102 CATAATTTTCATAATACACAACTTA
1 CATAATTTGCATAATAAACAACTTA
** *
18346127 CATAATTTGGGTAATAAATAACTTA
1 CATAATTTGCATAATAAACAACTTA
18346152 CATAAT
1 CATAAT
18346158 ACATAACTTA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.45, C:0.14, G:0.05, T:0.36
Consensus pattern (25 bp):
CATAATTTGCATAATAAACAACTTA
Found at i:18346157 original size:16 final size:16
Alignment explanation
Indices: 18346138--18346171 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
18346128 ATAATTTGGG
18346138 TAATAAATAACTTACA
1 TAATAAATAACTTACA
*
18346154 TAATACATAACTTACA
1 TAATAAATAACTTACA
18346170 TA
1 TA
18346172 GCTTAACTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.53, C:0.15, G:0.00, T:0.32
Consensus pattern (16 bp):
TAATAAATAACTTACA
Found at i:18351703 original size:66 final size:65
Alignment explanation
Indices: 18351595--18351759 Score: 215
Period size: 66 Copynumber: 2.5 Consensus size: 65
18351585 GAGCAAATTA
* * * * *
18351595 CACAACTTAAAGCGGAGGCAACATCGAGAGAAGCTGATGTTCAA-AAAAGATATGAAGAACTCCA
1 CACAACTTAAAGCAGATGCAGCAGCGAGAGAAGCTGAGGTTCAACAAAAG-TATGAAGAACTCCA
18351659 G
65 G
*
18351660 CTACAACTTAAAGCAGATGCAGCAGCGAGAGAAGCTGAGGTTCAACGAAAGTATGAAGAACTCCA
1 C-ACAACTTAAAGCAGATGCAGCAGCGAGAGAAGCTGAGGTTCAACAAAAGTATGAAGAACTCCA
18351725 G
65 G
* * *
18351726 CAGCAGCTTAGAGCAGATGCAGCAGCAAGAGAAG
1 CA-CAACTTAAAGCAGATGCAGCAGCGAGAGAAG
18351760 TAGAGGTGGC
Statistics
Matches: 88, Mismatches: 9, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
65 2 0.02
66 82 0.93
67 4 0.05
ACGTcount: A:0.41, C:0.19, G:0.26, T:0.14
Consensus pattern (65 bp):
CACAACTTAAAGCAGATGCAGCAGCGAGAGAAGCTGAGGTTCAACAAAAGTATGAAGAACTCCAG
Found at i:18351808 original size:21 final size:21
Alignment explanation
Indices: 18351784--18351848 Score: 103
Period size: 21 Copynumber: 3.1 Consensus size: 21
18351774 AGAGAAAGAC
18351784 AGGCTGCAGCGAGGGAAGCAG
1 AGGCTGCAGCGAGGGAAGCAG
** *
18351805 AGGCTAAAGCGAGGGAAGTAG
1 AGGCTGCAGCGAGGGAAGCAG
18351826 AGGCTGCAGCGAGGGAAGCAG
1 AGGCTGCAGCGAGGGAAGCAG
18351847 AG
1 AG
18351849 CAGCGTCAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 38 1.00
ACGTcount: A:0.32, C:0.15, G:0.46, T:0.06
Consensus pattern (21 bp):
AGGCTGCAGCGAGGGAAGCAG
Found at i:18352031 original size:10 final size:9
Alignment explanation
Indices: 18352012--18352041 Score: 51
Period size: 9 Copynumber: 3.2 Consensus size: 9
18352002 TAATACGAAT
18352012 TTTATTATA
1 TTTATTATA
18352021 TTTATTGATA
1 TTTATT-ATA
18352031 TTTATTATA
1 TTTATTATA
18352040 TT
1 TT
18352042 ACTTGTTTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 11 0.55
10 9 0.45
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.67
Consensus pattern (9 bp):
TTTATTATA
Found at i:18352257 original size:43 final size:43
Alignment explanation
Indices: 18352199--18352403 Score: 216
Period size: 43 Copynumber: 4.7 Consensus size: 43
18352189 AGGTGCTCGC
* * * *
18352199 CTTTAGTGGCATTTTTGGTAAAAGCGCCGCTATAGATTAGGGT
1 CTTTAGCGGCGTTTTTGGGAAAAGCGCCGCTATAGATCAGGGT
* * *
18352242 CTTTAGCGACGTTTTTGAGAGAAGCGCCGCTATAGATCAGGGT
1 CTTTAGCGGCGTTTTTGGGAAAAGCGCCGCTATAGATCAGGGT
*
18352285 ATTTAGCGGCGTTTTTGCGGGAAAA-CGCCGCTATAGATCAGGGT
1 CTTTAGCGGCGTTTTT--GGGAAAAGCGCCGCTATAGATCAGGGT
* * *** * *
18352329 CTTTAGTGGCGTTTGTGGCCGAAGAGCCGCTATTGATCAGGGT
1 CTTTAGCGGCGTTTTTGGGAAAAGCGCCGCTATAGATCAGGGT
* *
18352372 CTAGT-GCGGCGTTTGTGGGAAAAGCGCCGCTA
1 CT-TTAGCGGCGTTTTTGGGAAAAGCGCCGCTA
18352404 AAGACCCTGA
Statistics
Matches: 133, Mismatches: 25, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
42 4 0.03
43 91 0.68
44 33 0.25
45 5 0.04
ACGTcount: A:0.21, C:0.18, G:0.32, T:0.29
Consensus pattern (43 bp):
CTTTAGCGGCGTTTTTGGGAAAAGCGCCGCTATAGATCAGGGT
Found at i:18352381 original size:87 final size:86
Alignment explanation
Indices: 18352218--18352403 Score: 225
Period size: 87 Copynumber: 2.2 Consensus size: 86
18352208 CATTTTTGGT
* * *
18352218 AAAAGCGCCGCTATAGATTAGGGTCTTTAGCGACGTTTTTGAGAGAAGCGCCGCTATAGATCAGG
1 AAAAGCGCCGCTATAGATCAGGGTCTTTAGCGACGTTTGTGAGAGAAGAGCCGCTATAGATCAGG
*
18352283 GTATTTAGCGGCGTTTTTGCGGG
66 GTATGTAGCGGCG--TTTGCGGG
* * * *
18352306 AAAA-CGCCGCTATAGATCAGGGTCTTTAGTGGCGTTTGTG-GCCGAAGAGCCGCTATTGATCAG
1 AAAAGCGCCGCTATAGATCAGGGTCTTTAGCGACGTTTGTGAG-AGAAGAGCCGCTATAGATCAG
* *
18352369 GGTCTAGT-GCGGCGTTTGTGGG
65 GGTAT-GTAGCGGCGTTTGCGGG
18352391 AAAAGCGCCGCTA
1 AAAAGCGCCGCTA
18352404 AAGACCCTGA
Statistics
Matches: 85, Mismatches: 10, Indels: 8
0.83 0.10 0.08
Matches are distributed among these distances:
85 11 0.13
86 9 0.11
87 60 0.71
88 5 0.06
ACGTcount: A:0.22, C:0.19, G:0.33, T:0.26
Consensus pattern (86 bp):
AAAAGCGCCGCTATAGATCAGGGTCTTTAGCGACGTTTGTGAGAGAAGAGCCGCTATAGATCAGG
GTATGTAGCGGCGTTTGCGGG
Found at i:18352487 original size:38 final size:39
Alignment explanation
Indices: 18352391--18352564 Score: 189
Period size: 43 Copynumber: 4.4 Consensus size: 39
18352381 CGTTTGTGGG
**
18352391 AAAAGCGCCGCTAAAGACCCTGATCTATAGCGGCGCTTACACC
1 AAAA-CGCCGCTAAAGA-CCTGATCT-TAGCGGCGCTT-CTGC
*
18352434 ACAAACGCCACTAAAGACCCTGATCTATAGC-G-GCTT-TGC
1 A-AAACGCCGCTAAAGA-CCTGATCT-TAGCGGCGCTTCTGC
*
18352473 AAAACGCCGCTAAAGACCTGATCTTAGCGGCGCTTCCCGC
1 AAAACGCCGCTAAAGACCTGATCTTAGCGGCGCTT-CTGC
18352513 AAAACGCCGCTAAAG-CCTGATCTTAGCGGCGCTTTCT-C
1 AAAACGCCGCTAAAGACCTGATCTTAGCGGCGC-TTCTGC
18352551 AAAACG-CGCTAAAG
1 AAAACGCCGCTAAAG
18352565 GTTAGTCTTC
Statistics
Matches: 119, Mismatches: 6, Indels: 18
0.83 0.04 0.13
Matches are distributed among these distances:
36 4 0.03
37 17 0.14
38 25 0.21
39 20 0.17
40 19 0.16
41 4 0.03
42 1 0.01
43 26 0.22
44 3 0.03
ACGTcount: A:0.29, C:0.32, G:0.21, T:0.18
Consensus pattern (39 bp):
AAAACGCCGCTAAAGACCTGATCTTAGCGGCGCTTCTGC
Found at i:18352543 original size:39 final size:39
Alignment explanation
Indices: 18352391--18352564 Score: 189
Period size: 38 Copynumber: 4.4 Consensus size: 39
18352381 CGTTTGTGGG
*
18352391 AAAAGCGCCGCTAAAGACCCTGATCTATAGCGGCGCTTACACC
1 AAAA-CGCCGCTAAAGA-CCTGATCTATAGCGGCGCTT-C-GC
* *
18352434 ACAAACGCCACTAAAGACCCTGATCTATAGC-G-GCTTTGC
1 A-AAACGCCGCTAAAGA-CCTGATCTATAGCGGCGCTTCGC
18352473 AAAACGCCGCTAAAGACCTGATCT-TAGCGGCGCTTCCCGC
1 AAAACGCCGCTAAAGACCTGATCTATAGCGGCGCTT--CGC
*
18352513 AAAACGCCGCTAAAG-CCTGATCT-TAGCGGCGCTTTCTC
1 AAAACGCCGCTAAAGACCTGATCTATAGCGGCGC-TTCGC
18352551 AAAACG-CGCTAAAG
1 AAAACGCCGCTAAAG
18352565 GTTAGTCTTC
Statistics
Matches: 119, Mismatches: 6, Indels: 18
0.83 0.04 0.13
Matches are distributed among these distances:
36 4 0.03
37 17 0.14
38 26 0.22
39 19 0.16
40 19 0.16
41 4 0.03
42 1 0.01
43 26 0.22
44 3 0.03
ACGTcount: A:0.29, C:0.32, G:0.21, T:0.18
Consensus pattern (39 bp):
AAAACGCCGCTAAAGACCTGATCTATAGCGGCGCTTCGC
Found at i:18354392 original size:36 final size:39
Alignment explanation
Indices: 18354329--18354418 Score: 91
Period size: 36 Copynumber: 2.4 Consensus size: 39
18354319 GTCTCCAATT
* *
18354329 TCACATTTCAATTC-AATGTCACTTTTT-CACTTTCAA-
1 TCACAATTCAATTCAAAAGTCACTTTTTCCACTTTCAAG
* *
18354365 TCACAATTCAATTCAAAAGTTAC-TTTTCCATTTTCAAG
1 TCACAATTCAATTCAAAAGTCACTTTTTCCACTTTCAAG
*
18354403 TCA-ATATTCATTTCAA
1 TCACA-ATTCAATTCAA
18354419 TTCCACACAT
Statistics
Matches: 45, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
36 17 0.38
37 15 0.33
38 13 0.29
ACGTcount: A:0.32, C:0.22, G:0.03, T:0.42
Consensus pattern (39 bp):
TCACAATTCAATTCAAAAGTCACTTTTTCCACTTTCAAG
Found at i:18354400 original size:37 final size:38
Alignment explanation
Indices: 18354329--18354418 Score: 96
Period size: 37 Copynumber: 2.4 Consensus size: 38
18354319 GTCTCCAATT
* * *
18354329 TCACATTTCAATTC-AATGTCACTTTTTCACTTTCAA-
1 TCACAATTCAATTCAAAAGTCACTTTTCCACTTTCAAG
* *
18354365 TCACAATTCAATTCAAAAGTTACTTTTCCATTTTCAAG
1 TCACAATTCAATTCAAAAGTCACTTTTCCACTTTCAAG
*
18354403 TCA-ATATTCATTTCAA
1 TCACA-ATTCAATTCAA
18354419 TTCCACACAT
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
36 13 0.29
37 19 0.42
38 13 0.29
ACGTcount: A:0.32, C:0.22, G:0.03, T:0.42
Consensus pattern (38 bp):
TCACAATTCAATTCAAAAGTCACTTTTCCACTTTCAAG
Found at i:18356234 original size:23 final size:23
Alignment explanation
Indices: 18356208--18356306 Score: 162
Period size: 23 Copynumber: 4.3 Consensus size: 23
18356198 ATAAGTGCAA
18356208 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
18356231 CACTGTTATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
18356254 CACTGTTATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
18356277 CACTGAAACGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
18356300 CACTGAT
1 CACTGAT
18356307 CAATAACACT
Statistics
Matches: 71, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 71 1.00
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.22
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:18361836 original size:23 final size:23
Alignment explanation
Indices: 18361810--18361910 Score: 148
Period size: 23 Copynumber: 4.3 Consensus size: 23
18361800 ATAAGTGCAA
18361810 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
18361833 CACTGTTATGTAGCCGAGAAGCTAC
1 CACTGATATGTAGCC--GAAGCTAC
*
18361858 CACTGTTATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
18361881 CACTGAAACGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
18361904 CACTGAT
1 CACTGAT
18361911 CAATAACACT
Statistics
Matches: 71, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
23 48 0.68
25 23 0.32
ACGTcount: A:0.30, C:0.27, G:0.22, T:0.22
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:18361881 original size:48 final size:46
Alignment explanation
Indices: 18361810--18361910 Score: 148
Period size: 48 Copynumber: 2.2 Consensus size: 46
18361800 ATAAGTGCAA
** *
18361810 CACTGATATGTAGCCGAAGCTACCACTGTTATGTAGCCGAGAAGCTAC
1 CACTGATATGTAGCCGAAGCTACCACTGAAACGTAGCC--GAAGCTAC
*
18361858 CACTGTTATGTAGCCGAAGCTACCACTGAAACGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTACCACTGAAACGTAGCCGAAGCTAC
18361904 CACTGAT
1 CACTGAT
18361911 CAATAACACT
Statistics
Matches: 48, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
46 14 0.29
48 34 0.71
ACGTcount: A:0.30, C:0.27, G:0.22, T:0.22
Consensus pattern (46 bp):
CACTGATATGTAGCCGAAGCTACCACTGAAACGTAGCCGAAGCTAC
Found at i:18363427 original size:11 final size:12
Alignment explanation
Indices: 18363407--18363439 Score: 59
Period size: 11 Copynumber: 2.8 Consensus size: 12
18363397 ACTTTACTTT
18363407 ATATATAATATA
1 ATATATAATATA
18363419 ATA-ATAATATA
1 ATATATAATATA
18363430 ATATATAATA
1 ATATATAATA
18363440 AAACATAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 11 0.55
12 9 0.45
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (12 bp):
ATATATAATATA
Found at i:18363435 original size:18 final size:17
Alignment explanation
Indices: 18363414--18363449 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
18363404 TTTATATATA
*
18363414 ATATAATAATAATATAAT
1 ATATAATAA-AACATAAT
18363432 ATATAATAAAACATAAT
1 ATATAATAAAACATAAT
18363449 A
1 A
18363450 AATATCTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (17 bp):
ATATAATAAAACATAAT
Found at i:18364235 original size:40 final size:40
Alignment explanation
Indices: 18364157--18364235 Score: 99
Period size: 40 Copynumber: 2.0 Consensus size: 40
18364147 TAAAAAATAC
* * *
18364157 TCACTACATGCATATTAAAAAATAGTCAACACACCAACAA
1 TCACTACATGCATATTAAAAAATACTCAACAAAACAACAA
18364197 TCACTACATGCATATTAAAAAGA-ACTC-ACTAAAACAACA
1 TCACTACATGCATATTAAAAA-ATACTCAAC-AAAACAACA
18364236 TGTGACCAAC
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
39 2 0.06
40 31 0.91
41 1 0.03
ACGTcount: A:0.51, C:0.24, G:0.05, T:0.20
Consensus pattern (40 bp):
TCACTACATGCATATTAAAAAATACTCAACAAAACAACAA
Found at i:18366414 original size:18 final size:18
Alignment explanation
Indices: 18366391--18366425 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
18366381 CAAACAAACC
* *
18366391 GAAATCCAAATCGAAATT
1 GAAATCAAAATCAAAATT
18366409 GAAATCAAAATCAAAAT
1 GAAATCAAAATCAAAAT
18366426 CAAAATCAGT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.57, C:0.14, G:0.09, T:0.20
Consensus pattern (18 bp):
GAAATCAAAATCAAAATT
Found at i:18366496 original size:18 final size:18
Alignment explanation
Indices: 18366443--18366497 Score: 65
Period size: 18 Copynumber: 3.1 Consensus size: 18
18366433 AGTGAGTGTT
* *
18366443 TCAAAATTGAAATCAAAA
1 TCAAAATTAAAATCGAAA
*
18366461 TCAAAATTAGAATCGAAA
1 TCAAAATTAAAATCGAAA
* *
18366479 TCAAGATTAAAATTGAAA
1 TCAAAATTAAAATCGAAA
18366497 T
1 T
18366498 AACTCTAAAT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 31 1.00
ACGTcount: A:0.56, C:0.09, G:0.09, T:0.25
Consensus pattern (18 bp):
TCAAAATTAAAATCGAAA
Found at i:18367320 original size:13 final size:12
Alignment explanation
Indices: 18367302--18367337 Score: 54
Period size: 12 Copynumber: 2.9 Consensus size: 12
18367292 ATATAAAAAA
18367302 TTATTTCTTCTTT
1 TTATTTCTT-TTT
*
18367315 TTATTTCATTTT
1 TTATTTCTTTTT
18367327 TTATTTCTTTT
1 TTATTTCTTTT
18367338 CACTTTTGAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
12 13 0.62
13 8 0.38
ACGTcount: A:0.11, C:0.11, G:0.00, T:0.78
Consensus pattern (12 bp):
TTATTTCTTTTT
Found at i:18369488 original size:17 final size:17
Alignment explanation
Indices: 18369466--18369503 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
18369456 TAAGACAAAA
*
18369466 AGACAACTTATATTAGT
1 AGACAACTTATAATAGT
18369483 AGACAACTTATAATAGT
1 AGACAACTTATAATAGT
18369500 AGAC
1 AGAC
18369504 GAACCTAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.45, C:0.13, G:0.13, T:0.29
Consensus pattern (17 bp):
AGACAACTTATAATAGT
Found at i:18369514 original size:17 final size:17
Alignment explanation
Indices: 18369466--18369514 Score: 55
Period size: 17 Copynumber: 2.9 Consensus size: 17
18369456 TAAGACAAAA
* *
18369466 AGACAACTTATATTAGT
1 AGACAACCTATAATAGT
*
18369483 AGACAACTTATAATAGT
1 AGACAACCTATAATAGT
18369500 AGACGAACCTA-AATA
1 AGAC-AACCTATAATA
18369515 TGTCCTTAGT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
17 24 0.83
18 5 0.17
ACGTcount: A:0.47, C:0.14, G:0.12, T:0.27
Consensus pattern (17 bp):
AGACAACCTATAATAGT
Found at i:18370497 original size:12 final size:12
Alignment explanation
Indices: 18370480--18370527 Score: 69
Period size: 12 Copynumber: 3.9 Consensus size: 12
18370470 TGGTTTTCTC
*
18370480 GAAAATGGAAGT
1 GAAAATGGAAAT
18370492 GAAAATGGAAAT
1 GAAAATGGAAAT
*
18370504 GAAAATGAAAAT
1 GAAAATGGAAAT
18370516 GAAAATGAGAAA
1 GAAAATG-GAAA
18370528 CAAATTCTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
12 29 0.91
13 3 0.09
ACGTcount: A:0.60, C:0.00, G:0.25, T:0.15
Consensus pattern (12 bp):
GAAAATGGAAAT
Found at i:18370509 original size:6 final size:6
Alignment explanation
Indices: 18370480--18370523 Score: 61
Period size: 6 Copynumber: 7.3 Consensus size: 6
18370470 TGGTTTTCTC
* * *
18370480 GAAAAT GGAAGT GAAAAT GGAAAT GAAAAT GAAAAT GAAAAT GA
1 GAAAAT GAAAAT GAAAAT GAAAAT GAAAAT GAAAAT GAAAAT GA
18370524 GAAACAAATT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.59, C:0.00, G:0.25, T:0.16
Consensus pattern (6 bp):
GAAAAT
Found at i:18400861 original size:20 final size:19
Alignment explanation
Indices: 18400832--18400869 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
18400822 AATGTGTGTT
18400832 TCTTTTTGTTTTGATTTTA
1 TCTTTTTGTTTTGATTTTA
*
18400851 TCTTGTTTGTTTTTATTTT
1 TCTT-TTTGTTTTGATTTT
18400870 CTTTTTCATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.08, C:0.05, G:0.11, T:0.76
Consensus pattern (19 bp):
TCTTTTTGTTTTGATTTTA
Found at i:18402804 original size:20 final size:20
Alignment explanation
Indices: 18402779--18402816 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
18402769 TCATGAACAT
18402779 TTCCATTCACTTACTTACTG
1 TTCCATTCACTTACTTACTG
* *
18402799 TTCCATTCCCTTTCTTAC
1 TTCCATTCACTTACTTAC
18402817 CCGTTGAACC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.16, C:0.34, G:0.03, T:0.47
Consensus pattern (20 bp):
TTCCATTCACTTACTTACTG
Found at i:18403461 original size:6 final size:6
Alignment explanation
Indices: 18403450--18403475 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
18403440 TCAGTTTCGG
18403450 ATGCAA ATGCAA ATGCAA ATGCAA AT
1 ATGCAA ATGCAA ATGCAA ATGCAA AT
18403476 TCTAACATAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.50, C:0.15, G:0.15, T:0.19
Consensus pattern (6 bp):
ATGCAA
Found at i:18406268 original size:126 final size:125
Alignment explanation
Indices: 18406043--18406484 Score: 625
Period size: 126 Copynumber: 3.5 Consensus size: 125
18406033 CTAAAAAGCA
* * * ** *
18406043 AAGCAGGATGCTTTATCAA-AAGAATTTTTGAAGTCGCGCCCACGTGTATTCGCTTTTGCTACAG
1 AAGCAGGATGCTTTAT-AAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTACTACAG
*
18406107 TAGGTCCTGGAAGAAATAATTTCGACTTGACGTTTCTGAGCAAATAGTATAAAAAGCACTTC
65 TAGGTCCTGGAAGAAATAATTTCGACTTGACGTTTCTGAGCAAATAGTATAAAAA-CGCTTC
* * *
18406169 AAGCAGGATGTTTTATAAGAAGAATTTGTGAAATAGCGCCCTCGTGGACGCGCTTTTACTACAGT
1 AAGCAGGATGCTTTATAAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTACTACAGT
* *
18406234 AGGTCCTGGAAGAAATAATTTTGACTTGACGTTTCTGAGCAAATAGTTTAAAAAAACGCTTC
66 AGGTCCTGGAAGAAATAATTTCGACTTGACGTTTCTGAGCAAATAG--TATAAAAACGCTTC
* * *
18406296 AAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGT
1 AAGCAGGATGCTTTATAAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTACTACAGT
* *
18406361 AGGTCCTGGAAAAAATAATTTCAACTTGACGTTTCTGAGCAAATAGTATAAAAACGCTTC
66 AGGTCCTGGAAGAAATAATTTCGACTTGACGTTTCTGAGCAAATAGTATAAAAACGCTTC
*** * * *
18406421 AAGCAGGATGCAACATTGAGAAGAATTTGTGAAATCGCGCCCACGTTGATGCGCTTTTACTACA
1 AAGCAGGATGCTTTA-TAAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTACTACA
18406485 ATAGCATGTT
Statistics
Matches: 285, Mismatches: 27, Indels: 8
0.89 0.08 0.03
Matches are distributed among these distances:
125 27 0.09
126 142 0.50
127 109 0.38
128 7 0.02
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.29
Consensus pattern (125 bp):
AAGCAGGATGCTTTATAAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTACTACAGT
AGGTCCTGGAAGAAATAATTTCGACTTGACGTTTCTGAGCAAATAGTATAAAAACGCTTC
Found at i:18409519 original size:6 final size:6
Alignment explanation
Indices: 18409508--18409537 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
18409498 GTATCAGTCA
18409508 AGGGTT AGGGTT AGGGTT AGGGTT AGGGTT
1 AGGGTT AGGGTT AGGGTT AGGGTT AGGGTT
18409538 TTTAAGTTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.17, C:0.00, G:0.50, T:0.33
Consensus pattern (6 bp):
AGGGTT
Found at i:18409557 original size:22 final size:22
Alignment explanation
Indices: 18409526--18409687 Score: 130
Period size: 22 Copynumber: 7.6 Consensus size: 22
18409516 GGTTAGGGTT
18409526 AGGG-TTAGGGTTTTTAAGTTA
1 AGGGTTTAGGGTTTTTAAGTTA
18409547 AGGGTTTAGGGTTTTTAAGTTA
1 AGGGTTTAGGGTTTTTAAGTTA
* *
18409569 AGGG-TTAGAG--TTTAAGTTTT
1 AGGGTTTAGGGTTTTTAAG-TTA
*
18409589 AGGGTTAAGGG--TTTAAGGTTA
1 AGGGTTTAGGGTTTTTAA-GTTA
*
18409610 GGGGTTT----TTTAAGTTAAGTTA
1 AGGGTTTAGGGTTT---TTAAGTTA
*
18409631 AGGGTTTAGGGTTTATAAGTTA
1 AGGGTTTAGGGTTTTTAAGTTA
** *
18409653 AAAGTTCAGGGTTTTTAAGTTA
1 AGGGTTTAGGGTTTTTAAGTTA
18409675 AGGG-TTAGGGTTT
1 AGGGTTTAGGGTTT
18409688 AGGGTTTACG
Statistics
Matches: 112, Mismatches: 16, Indels: 26
0.73 0.10 0.17
Matches are distributed among these distances:
19 7 0.06
20 6 0.05
21 43 0.38
22 53 0.47
25 3 0.03
ACGTcount: A:0.25, C:0.01, G:0.32, T:0.42
Consensus pattern (22 bp):
AGGGTTTAGGGTTTTTAAGTTA
Found at i:18409588 original size:49 final size:50
Alignment explanation
Indices: 18409520--18409714 Score: 127
Period size: 49 Copynumber: 3.8 Consensus size: 50
18409510 GGTTAGGGTT
*
18409520 AGGGTTAGGG-TTAGGGTTTTTA-AGTTAAGGGTTTAGGGTTTTTAAGTTA
1 AGGGTTAGGGTTTA-AGTTTTTACAGTTAAGGGTTTAGGGTTTTTAAGTTA
* **
18409569 AGGGTTAGAGTTTAAG-TTTTAGGGTTAAGGGTTTAAGGTTAGGGGTTTTTTAAGTTA
1 AGGGTTAGGGTTTAAGTTTTTACAGTTAAGGG--T----TTA-GGG-TTTTTAAGTTA
* * ** *
18409626 A--GTTAAGGGTTTAGGGTTTATA-AGTTAAAAGTTCAGGGTTTTTAAGTTA
1 AGGGTT-AGGGTTTA-AGTTTTTACAGTTAAGGGTTTAGGGTTTTTAAGTTA
** *
18409675 AGGGTTAGGGTTT-AGGGTTTACGGTT-AGGGTTTAGGGTTT
1 AGGGTTAGGGTTTAAGTTTTTACAGTTAAGGGTTTAGGGTTT
18409715 AGGGTTTAGG
Statistics
Matches: 112, Mismatches: 18, Indels: 33
0.69 0.11 0.20
Matches are distributed among these distances:
48 20 0.18
49 33 0.29
50 13 0.12
51 6 0.05
55 7 0.06
56 10 0.09
57 19 0.17
58 4 0.04
ACGTcount: A:0.24, C:0.01, G:0.34, T:0.42
Consensus pattern (50 bp):
AGGGTTAGGGTTTAAGTTTTTACAGTTAAGGGTTTAGGGTTTTTAAGTTA
Found at i:18409688 original size:106 final size:105
Alignment explanation
Indices: 18409526--18409718 Score: 280
Period size: 106 Copynumber: 1.8 Consensus size: 105
18409516 GGTTAGGGTT
* ** * * *
18409526 AGGGTTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGGTTAGAGTTTAAGTTTTAG
1 AGGGTTAGGGTTTATAAGTTAAAAGTTCAGGGTTTTTAAGTTAAGGGTTAGAGTTTAAGGTTTAC
18409591 GGTTAAGGGTTTAAGG-TTAGGGGTTTTTTAAGTTAAGTTA
66 GGTT-AGGGTTTAAGGTTTAGGGGTTTTTTAAGTTAAGTTA
* *
18409631 AGGGTTTAGGGTTTATAAGTTAAAAGTTCAGGGTTTTTAAGTTAAGGGTTAGGGTTTAGGGTTTA
1 AGGG-TTAGGGTTTATAAGTTAAAAGTTCAGGGTTTTTAAGTTAAGGGTTAGAGTTTAAGGTTTA
*
18409696 CGGTTAGGGTTTAGGGTTTAGGG
65 CGGTTAGGGTTTAAGGTTTAGGG
18409719 TTTAGGGTTT
Statistics
Matches: 77, Mismatches: 9, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
105 14 0.18
106 63 0.82
ACGTcount: A:0.24, C:0.01, G:0.34, T:0.41
Consensus pattern (105 bp):
AGGGTTAGGGTTTATAAGTTAAAAGTTCAGGGTTTTTAAGTTAAGGGTTAGAGTTTAAGGTTTAC
GGTTAGGGTTTAAGGTTTAGGGGTTTTTTAAGTTAAGTTA
Found at i:18409689 original size:7 final size:7
Alignment explanation
Indices: 18409675--18409728 Score: 85
Period size: 7 Copynumber: 8.0 Consensus size: 7
18409665 TTTTAAGTTA
18409675 AGGG-TT
1 AGGGTTT
18409681 AGGGTTT
1 AGGGTTT
18409688 AGGGTTT
1 AGGGTTT
*
18409695 ACGG-TT
1 AGGGTTT
18409701 AGGGTTT
1 AGGGTTT
18409708 AGGGTTT
1 AGGGTTT
18409715 AGGGTTT
1 AGGGTTT
18409722 AGGGTTT
1 AGGGTTT
18409729 GTCAATTAAA
Statistics
Matches: 44, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
6 9 0.20
7 35 0.80
ACGTcount: A:0.15, C:0.02, G:0.43, T:0.41
Consensus pattern (7 bp):
AGGGTTT
Found at i:18409701 original size:27 final size:27
Alignment explanation
Indices: 18409675--18409727 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
18409665 TTTTAAGTTA
18409675 AGGG-TTAGGGTTTAGGGTTTACGGTT
1 AGGGTTTAGGGTTTAGGGTTTACGGTT
*
18409701 AGGGTTTAGGGTTTAGGGTTTAGGGTT
1 AGGGTTTAGGGTTTAGGGTTTACGGTT
18409728 TGTCAATTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
26 4 0.16
27 21 0.84
ACGTcount: A:0.15, C:0.02, G:0.43, T:0.40
Consensus pattern (27 bp):
AGGGTTTAGGGTTTAGGGTTTACGGTT
Found at i:18409702 original size:20 final size:20
Alignment explanation
Indices: 18409677--18409728 Score: 86
Period size: 20 Copynumber: 2.5 Consensus size: 20
18409667 TTAAGTTAAG
18409677 GGTTAGGGTTTAGGGTTTAC
1 GGTTAGGGTTTAGGGTTTAC
*
18409697 GGTTAGGGTTTAGGGTTTAG
1 GGTTAGGGTTTAGGGTTTAC
18409717 GGTTTAGGGTTT
1 GG-TTAGGGTTT
18409729 GTCAATTAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
20 21 0.70
21 9 0.30
ACGTcount: A:0.13, C:0.02, G:0.42, T:0.42
Consensus pattern (20 bp):
GGTTAGGGTTTAGGGTTTAC
Found at i:18411181 original size:20 final size:20
Alignment explanation
Indices: 18411144--18411181 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
18411134 TATTATTTTA
*
18411144 AAAATCTACATAATAATTGT
1 AAAATCTACATAAAAATTGT
18411164 AAAATCTA-ATATAAAATT
1 AAAATCTACATA-AAAATT
18411182 TACCTCGTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.19
20 13 0.81
ACGTcount: A:0.55, C:0.08, G:0.03, T:0.34
Consensus pattern (20 bp):
AAAATCTACATAAAAATTGT
Found at i:18412144 original size:11 final size:12
Alignment explanation
Indices: 18412130--18412166 Score: 51
Period size: 11 Copynumber: 3.2 Consensus size: 12
18412120 AAAAATAGTG
18412130 ATTTAAGAG-AA
1 ATTTAAGAGCAA
18412141 ATTTAAGAGCAA
1 ATTTAAGAGCAA
*
18412153 A-TTGAGAGCAA
1 ATTTAAGAGCAA
18412164 ATT
1 ATT
18412167 GAGATTAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
11 19 0.83
12 4 0.17
ACGTcount: A:0.49, C:0.05, G:0.19, T:0.27
Consensus pattern (12 bp):
ATTTAAGAGCAA
Found at i:18412166 original size:51 final size:50
Alignment explanation
Indices: 18412118--18412221 Score: 129
Period size: 51 Copynumber: 2.0 Consensus size: 50
18412108 TTTAAATTAT
18412118 TTAAAAATAGTGATTTAAGAGAAATTT-AAGAGCAAATTGAGAGCAAATTGAGA
1 TTAAAAAT-G-GATTTAAGAGAAATTTGAAG-G-AAATTGAGAGCAAATTGAGA
* * *
18412171 TTAAATATGGATTTGAGAGAAATTTGGAAGGAATTTGAGAGCAAATTGAGA
1 TTAAAAATGGATTTAAGAGAAATTT-GAAGGAAATTGAGAGCAAATTGAGA
18412222 GGAAATTTGA
Statistics
Matches: 46, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
51 34 0.74
52 2 0.04
53 10 0.22
ACGTcount: A:0.45, C:0.03, G:0.24, T:0.28
Consensus pattern (50 bp):
TTAAAAATGGATTTAAGAGAAATTTGAAGGAAATTGAGAGCAAATTGAGA
Done.